Mercurial > repos > iuc > dada2_plotqualityprofile
annotate topics/metagenomics/tutorials/dada2/tutorial.md @ 4:f947b4bb5107 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
author | iuc |
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date | Mon, 01 Feb 2021 20:15:09 +0000 |
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4
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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1 --- |
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2 layout: tutorial_hands_on |
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3 |
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4 title: 16S Microbial Analysis with mothur (extended) |
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5 zenodo_link: https://doi.org/10.5281/zenodo.800651 |
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6 questions: |
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7 - What is the effect of normal variation in the gut microbiome on host health? |
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8 objectives: |
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9 - Analyze of 16S rRNA sequencing data using the mothur toolsuite in Galaxy |
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10 - Using a mock community to assess the error rate of your sequencing experiment |
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11 - Visualize sample diversity using Krona and Phinch |
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12 time_estimation: '' |
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13 key_points: |
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14 - 16S rRNA gene sequencing analysis results depend on the many algorithms used and |
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15 their settings |
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16 - Quality control and cleaning of your data is a crucial step in order to obtain optimal |
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17 results |
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18 - Adding a mock community to serve as a control sample can help you asses the error |
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19 rate of your experimental setup |
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20 - We can explore alpha and beta diversities using Krona and Phinch for dynamic visualizations |
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21 contributors: |
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22 - shiltemann |
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23 - bebatut |
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24 - tnabtaf |
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25 |
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26 --- |
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27 |
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28 |
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29 # Introduction |
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30 {:.no_toc} |
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31 |
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32 <!-- This is a comment. --> |
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33 |
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34 General introduction about the topic and then an introduction of the |
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35 tutorial (the questions and the objectives). It is nice also to have a |
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36 scheme to sum up the pipeline used during the tutorial. The idea is to |
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37 give to trainees insight into the content of the tutorial and the (theoretical |
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38 and technical) key concepts they will learn. |
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39 |
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40 You may want to cite some publications; this can be done by adding citations to the |
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41 bibliography file (`tutorial.bib` file next to your `tutorial.md` file). These citations |
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42 must be in bibtex format. If you have the DOI for the paper you wish to cite, you can |
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43 get the corresponding bibtex entry using [doi2bib.org](https://doi2bib.org). |
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44 |
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45 With the example you will find in the `tutorial.bib` file, you can add a citation to |
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46 this article here in your tutorial like this: |
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47 {% raw %} `{% cite Batut2018 %}`{% endraw %}. |
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48 This will be rendered like this: {% cite Batut2018 %}, and links to a |
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49 [bibliography section](#bibliography) which will automatically be created at the end of the |
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50 tutorial. |
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51 |
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52 |
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53 **Please follow our |
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54 [tutorial to learn how to fill the Markdown]({{ site.baseurl }}/topics/contributing/tutorials/create-new-tutorial-content/tutorial.html)** |
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55 |
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56 > ### Agenda |
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57 > |
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58 > In this tutorial, we will cover: |
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59 > |
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60 > 1. TOC |
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61 > {:toc} |
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62 > |
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63 {: .agenda} |
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64 |
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65 # Title for your first section |
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66 |
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67 Give some background about what the trainees will be doing in the section. |
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68 Remember that many people reading your materials will likely be novices, |
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69 so make sure to explain all the relevant concepts. |
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70 |
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71 ## Title for a subsection |
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72 Section and subsection titles will be displayed in the tutorial index on the left side of |
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73 the page, so try to make them informative and concise! |
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74 |
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75 # Hands-on Sections |
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76 Below are a series of hand-on boxes, one for each tool in your workflow file. |
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77 Often you may wish to combine several boxes into one or make other adjustments such |
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78 as breaking the tutorial into sections, we encourage you to make such changes as you |
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79 see fit, this is just a starting point :) |
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80 |
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81 Anywhere you find the word "***TODO***", there is something that needs to be changed |
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82 depending on the specifics of your tutorial. |
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83 |
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84 have fun! |
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85 |
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86 ## Get data |
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87 |
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88 > ### {% icon hands_on %} Hands-on: Data upload |
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89 > |
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90 > 1. Create a new history for this tutorial |
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91 > 2. Import the files from [Zenodo]() or from the shared data library |
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92 > |
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93 > ``` |
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94 > |
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95 > ``` |
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96 > ***TODO***: *Add the files by the ones on Zenodo here (if not added)* |
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97 > |
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98 > ***TODO***: *Remove the useless files (if added)* |
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99 > |
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100 > {% include snippets/import_via_link.md %} |
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101 > {% include snippets/import_from_data_library.md %} |
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102 > |
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103 > 3. Rename the datasets |
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104 > 4. Check that the datatype |
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105 > |
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106 > {% include snippets/change_datatype.md datatype="datatypes" %} |
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107 > |
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108 > 5. Add to each database a tag corresponding to ... |
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109 > |
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110 > {% include snippets/add_tag.md %} |
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111 > |
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112 {: .hands_on} |
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113 |
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114 # Title of the section usually corresponding to a big step in the analysis |
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115 |
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116 It comes first a description of the step: some background and some theory. |
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117 Some image can be added there to support the theory explanation: |
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118 |
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119 ![Alternative text](../../images/image_name "Legend of the image") |
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120 |
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121 The idea is to keep the theory description before quite simple to focus more on the practical part. |
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122 |
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123 ***TODO***: *Consider adding a detail box to expand the theory* |
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124 |
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125 > ### {% icon details %} More details about the theory |
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126 > |
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127 > But to describe more details, it is possible to use the detail boxes which are expandable |
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128 > |
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129 {: .details} |
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130 |
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131 A big step can have several subsections or sub steps: |
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132 |
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133 |
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134 ## Sub-step with **dada2_plotComplexity** |
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135 |
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136 > ### {% icon hands_on %} Hands-on: Task description |
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137 > |
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138 > 1. **dada2_plotComplexity** {% icon tool %} with the following parameters: |
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139 > |
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140 > ***TODO***: *Check parameter descriptions* |
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141 > |
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142 > ***TODO***: *Consider adding a comment or tip box* |
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143 > |
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144 > > ### {% icon comment %} Comment |
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145 > > |
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146 > > A comment about the tool or something else. This box can also be in the main text |
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147 > {: .comment} |
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148 > |
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149 {: .hands_on} |
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150 |
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151 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
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152 |
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153 > ### {% icon question %} Questions |
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154 > |
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155 > 1. Question1? |
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156 > 2. Question2? |
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157 > |
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158 > > ### {% icon solution %} Solution |
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159 > > |
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160 > > 1. Answer for question1 |
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161 > > 2. Answer for question2 |
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162 > > |
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163 > {: .solution} |
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164 > |
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165 {: .question} |
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166 |
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167 ## Sub-step with **dada2_plotQualityProfile** |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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168 |
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169 > ### {% icon hands_on %} Hands-on: Task description |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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170 > |
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171 > 1. **dada2_plotQualityProfile** {% icon tool %} with the following parameters: |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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172 > |
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173 > ***TODO***: *Check parameter descriptions* |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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174 > |
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175 > ***TODO***: *Consider adding a comment or tip box* |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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176 > |
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177 > > ### {% icon comment %} Comment |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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178 > > |
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179 > > A comment about the tool or something else. This box can also be in the main text |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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180 > {: .comment} |
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181 > |
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182 {: .hands_on} |
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183 |
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184 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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185 |
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186 > ### {% icon question %} Questions |
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187 > |
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188 > 1. Question1? |
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189 > 2. Question2? |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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190 > |
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191 > > ### {% icon solution %} Solution |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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192 > > |
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193 > > 1. Answer for question1 |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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194 > > 2. Answer for question2 |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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195 > > |
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196 > {: .solution} |
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197 > |
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198 {: .question} |
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199 |
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200 ## Sub-step with **dada2_filterAndTrim** |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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201 |
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202 > ### {% icon hands_on %} Hands-on: Task description |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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203 > |
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204 > 1. **dada2_filterAndTrim** {% icon tool %} with the following parameters: |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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205 > |
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206 > ***TODO***: *Check parameter descriptions* |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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207 > |
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208 > ***TODO***: *Consider adding a comment or tip box* |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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209 > |
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210 > > ### {% icon comment %} Comment |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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211 > > |
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212 > > A comment about the tool or something else. This box can also be in the main text |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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213 > {: .comment} |
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214 > |
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215 {: .hands_on} |
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216 |
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217 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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218 |
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219 > ### {% icon question %} Questions |
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220 > |
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221 > 1. Question1? |
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222 > 2. Question2? |
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223 > |
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224 > > ### {% icon solution %} Solution |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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225 > > |
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226 > > 1. Answer for question1 |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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227 > > 2. Answer for question2 |
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228 > > |
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229 > {: .solution} |
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230 > |
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231 {: .question} |
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232 |
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233 ## Sub-step with **dada2_plotComplexity** |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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234 |
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235 > ### {% icon hands_on %} Hands-on: Task description |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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236 > |
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237 > 1. **dada2_plotComplexity** {% icon tool %} with the following parameters: |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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238 > |
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239 > ***TODO***: *Check parameter descriptions* |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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240 > |
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241 > ***TODO***: *Consider adding a comment or tip box* |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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242 > |
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243 > > ### {% icon comment %} Comment |
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244 > > |
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245 > > A comment about the tool or something else. This box can also be in the main text |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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246 > {: .comment} |
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247 > |
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248 {: .hands_on} |
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249 |
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250 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
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251 |
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252 > ### {% icon question %} Questions |
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253 > |
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254 > 1. Question1? |
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255 > 2. Question2? |
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256 > |
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257 > > ### {% icon solution %} Solution |
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258 > > |
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259 > > 1. Answer for question1 |
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260 > > 2. Answer for question2 |
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261 > > |
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262 > {: .solution} |
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263 > |
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264 {: .question} |
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265 |
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266 ## Sub-step with **dada2_plotQualityProfile** |
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267 |
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268 > ### {% icon hands_on %} Hands-on: Task description |
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269 > |
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270 > 1. **dada2_plotQualityProfile** {% icon tool %} with the following parameters: |
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271 > |
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272 > ***TODO***: *Check parameter descriptions* |
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273 > |
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274 > ***TODO***: *Consider adding a comment or tip box* |
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275 > |
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276 > > ### {% icon comment %} Comment |
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277 > > |
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278 > > A comment about the tool or something else. This box can also be in the main text |
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279 > {: .comment} |
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280 > |
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281 {: .hands_on} |
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282 |
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283 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
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284 |
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285 > ### {% icon question %} Questions |
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286 > |
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287 > 1. Question1? |
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288 > 2. Question2? |
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289 > |
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290 > > ### {% icon solution %} Solution |
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291 > > |
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292 > > 1. Answer for question1 |
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293 > > 2. Answer for question2 |
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294 > > |
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295 > {: .solution} |
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296 > |
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297 {: .question} |
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298 |
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299 ## Sub-step with **Unzip Collection** |
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300 |
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301 > ### {% icon hands_on %} Hands-on: Task description |
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302 > |
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303 > 1. **Unzip Collection** {% icon tool %} with the following parameters: |
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304 > - {% icon param-file %} *"Input Paired Dataset"*: `paired_output` (output of **dada2_filterAndTrim** {% icon tool %}) |
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305 > |
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306 > ***TODO***: *Check parameter descriptions* |
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307 > |
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308 > ***TODO***: *Consider adding a comment or tip box* |
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309 > |
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310 > > ### {% icon comment %} Comment |
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311 > > |
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312 > > A comment about the tool or something else. This box can also be in the main text |
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313 > {: .comment} |
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314 > |
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315 {: .hands_on} |
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316 |
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317 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
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318 |
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319 > ### {% icon question %} Questions |
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320 > |
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321 > 1. Question1? |
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322 > 2. Question2? |
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323 > |
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324 > > ### {% icon solution %} Solution |
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325 > > |
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326 > > 1. Answer for question1 |
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327 > > 2. Answer for question2 |
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328 > > |
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329 > {: .solution} |
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330 > |
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331 {: .question} |
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332 |
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333 ## Sub-step with **dada2_learnErrors** |
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334 |
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335 > ### {% icon hands_on %} Hands-on: Task description |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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336 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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337 > 1. **dada2_learnErrors** {% icon tool %} with the following parameters: |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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338 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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339 > ***TODO***: *Check parameter descriptions* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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340 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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341 > ***TODO***: *Consider adding a comment or tip box* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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342 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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343 > > ### {% icon comment %} Comment |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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344 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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345 > > A comment about the tool or something else. This box can also be in the main text |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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346 > {: .comment} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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347 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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348 {: .hands_on} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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349 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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350 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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351 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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352 > ### {% icon question %} Questions |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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353 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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354 > 1. Question1? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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355 > 2. Question2? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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356 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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357 > > ### {% icon solution %} Solution |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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358 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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359 > > 1. Answer for question1 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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360 > > 2. Answer for question2 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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361 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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362 > {: .solution} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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363 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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364 {: .question} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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365 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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366 ## Sub-step with **dada2_learnErrors** |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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367 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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368 > ### {% icon hands_on %} Hands-on: Task description |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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369 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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370 > 1. **dada2_learnErrors** {% icon tool %} with the following parameters: |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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371 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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372 > ***TODO***: *Check parameter descriptions* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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373 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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374 > ***TODO***: *Consider adding a comment or tip box* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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375 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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376 > > ### {% icon comment %} Comment |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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377 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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378 > > A comment about the tool or something else. This box can also be in the main text |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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379 > {: .comment} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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380 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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381 {: .hands_on} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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382 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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383 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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384 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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385 > ### {% icon question %} Questions |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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386 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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387 > 1. Question1? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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388 > 2. Question2? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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389 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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390 > > ### {% icon solution %} Solution |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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391 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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392 > > 1. Answer for question1 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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393 > > 2. Answer for question2 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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394 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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395 > {: .solution} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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396 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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397 {: .question} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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398 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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399 ## Sub-step with **dada2_dada** |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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400 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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401 > ### {% icon hands_on %} Hands-on: Task description |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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402 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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403 > 1. **dada2_dada** {% icon tool %} with the following parameters: |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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404 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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405 > ***TODO***: *Check parameter descriptions* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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406 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
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407 > ***TODO***: *Consider adding a comment or tip box* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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408 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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409 > > ### {% icon comment %} Comment |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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410 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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411 > > A comment about the tool or something else. This box can also be in the main text |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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412 > {: .comment} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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413 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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414 {: .hands_on} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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415 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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416 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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417 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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418 > ### {% icon question %} Questions |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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419 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
420 > 1. Question1? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
421 > 2. Question2? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
422 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
423 > > ### {% icon solution %} Solution |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
424 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
425 > > 1. Answer for question1 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
426 > > 2. Answer for question2 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
427 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
428 > {: .solution} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
429 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
430 {: .question} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
431 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
432 ## Sub-step with **dada2_dada** |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
433 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
434 > ### {% icon hands_on %} Hands-on: Task description |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
435 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
436 > 1. **dada2_dada** {% icon tool %} with the following parameters: |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
437 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
438 > ***TODO***: *Check parameter descriptions* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
439 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
440 > ***TODO***: *Consider adding a comment or tip box* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
441 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
442 > > ### {% icon comment %} Comment |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
443 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
444 > > A comment about the tool or something else. This box can also be in the main text |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
445 > {: .comment} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
446 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
447 {: .hands_on} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
448 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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changeset
|
449 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
450 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
451 > ### {% icon question %} Questions |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
452 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
453 > 1. Question1? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
454 > 2. Question2? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
455 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
456 > > ### {% icon solution %} Solution |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
457 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
458 > > 1. Answer for question1 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
459 > > 2. Answer for question2 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
460 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
461 > {: .solution} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
462 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
463 {: .question} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
464 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
465 ## Sub-step with **dada2_mergePairs** |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
466 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
467 > ### {% icon hands_on %} Hands-on: Task description |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
468 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
469 > 1. **dada2_mergePairs** {% icon tool %} with the following parameters: |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
470 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
471 > ***TODO***: *Check parameter descriptions* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
472 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
473 > ***TODO***: *Consider adding a comment or tip box* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
474 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
475 > > ### {% icon comment %} Comment |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
476 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
477 > > A comment about the tool or something else. This box can also be in the main text |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
478 > {: .comment} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
479 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
480 {: .hands_on} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
481 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
482 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
483 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
484 > ### {% icon question %} Questions |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
485 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
486 > 1. Question1? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
487 > 2. Question2? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
488 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
489 > > ### {% icon solution %} Solution |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
490 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
491 > > 1. Answer for question1 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
492 > > 2. Answer for question2 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
493 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
494 > {: .solution} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
495 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
496 {: .question} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
497 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
498 ## Sub-step with **dada2_makeSequenceTable** |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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|
499 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
500 > ### {% icon hands_on %} Hands-on: Task description |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
501 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
502 > 1. **dada2_makeSequenceTable** {% icon tool %} with the following parameters: |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
503 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
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|
504 > ***TODO***: *Check parameter descriptions* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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changeset
|
505 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
506 > ***TODO***: *Consider adding a comment or tip box* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
507 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
508 > > ### {% icon comment %} Comment |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
509 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
510 > > A comment about the tool or something else. This box can also be in the main text |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
511 > {: .comment} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
512 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
513 {: .hands_on} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
514 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
515 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
516 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
517 > ### {% icon question %} Questions |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
518 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
519 > 1. Question1? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
520 > 2. Question2? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
521 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
522 > > ### {% icon solution %} Solution |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
523 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
524 > > 1. Answer for question1 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
525 > > 2. Answer for question2 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
526 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
527 > {: .solution} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
528 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
529 {: .question} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
530 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
531 ## Sub-step with **dada2_removeBimeraDenovo** |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
532 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
533 > ### {% icon hands_on %} Hands-on: Task description |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
534 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
535 > 1. **dada2_removeBimeraDenovo** {% icon tool %} with the following parameters: |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
536 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
537 > ***TODO***: *Check parameter descriptions* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
538 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
539 > ***TODO***: *Consider adding a comment or tip box* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
540 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
541 > > ### {% icon comment %} Comment |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
542 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
543 > > A comment about the tool or something else. This box can also be in the main text |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
544 > {: .comment} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
545 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
546 {: .hands_on} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
547 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
548 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
549 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
550 > ### {% icon question %} Questions |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
551 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
552 > 1. Question1? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
553 > 2. Question2? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
554 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
555 > > ### {% icon solution %} Solution |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
556 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
557 > > 1. Answer for question1 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
558 > > 2. Answer for question2 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
559 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
560 > {: .solution} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
561 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
562 {: .question} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
563 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
564 ## Sub-step with **dada2_seqCounts** |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
565 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
566 > ### {% icon hands_on %} Hands-on: Task description |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
567 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
568 > 1. **dada2_seqCounts** {% icon tool %} with the following parameters: |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
569 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
570 > ***TODO***: *Check parameter descriptions* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
571 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
572 > ***TODO***: *Consider adding a comment or tip box* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
573 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
574 > > ### {% icon comment %} Comment |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
575 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
576 > > A comment about the tool or something else. This box can also be in the main text |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
577 > {: .comment} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
578 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
579 {: .hands_on} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
580 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
581 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
582 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
583 > ### {% icon question %} Questions |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
584 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
585 > 1. Question1? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
586 > 2. Question2? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
587 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
588 > > ### {% icon solution %} Solution |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
diff
changeset
|
589 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
iuc
parents:
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590 > > 1. Answer for question1 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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591 > > 2. Answer for question2 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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592 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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593 > {: .solution} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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594 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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595 {: .question} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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596 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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597 ## Sub-step with **dada2_assignTaxonomyAddspecies** |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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598 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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599 > ### {% icon hands_on %} Hands-on: Task description |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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600 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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601 > 1. **dada2_assignTaxonomyAddspecies** {% icon tool %} with the following parameters: |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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602 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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603 > ***TODO***: *Check parameter descriptions* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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604 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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605 > ***TODO***: *Consider adding a comment or tip box* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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606 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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607 > > ### {% icon comment %} Comment |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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608 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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609 > > A comment about the tool or something else. This box can also be in the main text |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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610 > {: .comment} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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611 > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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612 {: .hands_on} |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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613 |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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614 ***TODO***: *Consider adding a question to test the learners understanding of the previous exercise* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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615 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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616 > ### {% icon question %} Questions |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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617 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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618 > 1. Question1? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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619 > 2. Question2? |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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620 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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621 > > ### {% icon solution %} Solution |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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622 > > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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623 > > 1. Answer for question1 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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624 > > 2. Answer for question2 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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625 > > |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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626 > {: .solution} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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627 > |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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628 {: .question} |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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629 |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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630 |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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631 ## Re-arrange |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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632 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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633 To create the template, each step of the workflow had its own subsection. |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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634 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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635 ***TODO***: *Re-arrange the generated subsections into sections or other subsections. |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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636 Consider merging some hands-on boxes to have a meaningful flow of the analyses* |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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637 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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638 # Conclusion |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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639 {:.no_toc} |
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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640 |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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641 Sum up the tutorial and the key takeaways here. We encourage adding an overview image of the |
f947b4bb5107
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit 52d835f027b052a0a887be14a55faf9fa9e456ae"
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642 pipeline used. |