Mercurial > repos > ebi-gxa > sccaf_regress_out
annotate sccaf_macros.xml @ 0:885db50f1bc1 draft
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
author | ebi-gxa |
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date | Tue, 19 Nov 2019 13:06:04 -0500 |
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children | 5ef0610e9f50 |
rev | line source |
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0
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
parents:
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changeset
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1 <macros> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
parents:
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2 <xml name="requirements"> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
parents:
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3 <requirements> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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4 <requirement type="package" version="@TOOL_VERSION@">sccaf</requirement> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
parents:
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5 </requirements> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
parents:
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6 </xml> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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7 <token name="@TOOL_VERSION@">0.0.8</token> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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8 <token name="@SCCAF_INTRO@"> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
parents:
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9 SCCAF explained |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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10 =============== |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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11 |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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12 Single Cell Clustering Assessment Framework (SCCAF) is a novel method for |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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13 automated identification of putative cell types from single cell RNA-seq |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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14 (scRNA-seq) data. By iteratively applying clustering and a machine learning |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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15 approach to gene expression profiles of a given set of cells, SCCAF |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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16 simultaneously identifies distinct cell groups and a weighted list of feature |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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changeset
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17 genes for each group. The feature genes, which are overexpressed in the |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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18 particular cell group, jointly discriminate the given cell group from other |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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19 cells. Each such group of cells corresponds to a putative cell type or state, |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
parents:
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20 characterised by the feature genes as markers. |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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21 </token> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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22 <token name="@HELP@">More information can be found at https://github.com/SCCAF/SCCAF</token> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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23 <token name="@PLOT_OPTS@"> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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24 #if $do_plotting.plot |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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25 -P output.png |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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26 --projectio $do_plotting.projection |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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27 --components $do_plotting.components |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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28 #if $do_plotting.color_by |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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29 --color-by $do_plotting.color_by |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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30 #end if |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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31 #if $do_plotting.groups |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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32 --group $do_plotting.groups |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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33 #end if |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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34 #if $do_plotting.use_raw |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
ebi-gxa
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35 --use-raw |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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36 #end if |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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37 #if $do_plotting.palette |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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38 --palette $do_plotting.palette |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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39 #end if |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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40 #if $do_plotting.show_edges |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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41 --edges |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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42 #end if |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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43 #if $do_plotting.show_arrows |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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44 --arrows |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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45 #end if |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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46 #if not $do_plotting.color_order |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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47 --no-sort-order |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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48 #end if |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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49 #if $do_plotting.omit_frame |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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50 --frameoff |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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51 #end if |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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52 #end if |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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53 </token> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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54 <xml name="citations"> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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55 <citations> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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56 <citation type="doi"></citation> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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57 <citation type="bibtex"> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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58 @misc{githubsccaf, |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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59 author = {Miao, Zhichao}, |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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60 year = {2018}, |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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61 title = {SCCAF}, |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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62 publisher = {GitHub}, |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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63 journal = {GitHub repository}, |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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64 url = {https://github.com/Functional-Genomics/SCCAF}, |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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65 }</citation> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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66 <yield /> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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67 </citations> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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68 </xml> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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69 <xml name="input_object_params"> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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70 <param name="input_obj_file" argument="--input-object-file" type="data" format="h5" label="Input object in AnnData hdf5 format" help="Normally the result of Scanpy (or equivalent), which already has both a visualisation (either tSNE, UMAP or PCA - needed) and clustering (ideally) pre-computed."/> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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71 <param name="input_format" argument="--input-format" type="select" label="Format of input object"> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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72 <option value="anndata" selected="true">AnnData format hdf5</option> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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73 <option value="loom">Loom format hdf5, current support is incomplete</option> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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74 </param> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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75 </xml> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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76 <xml name="output_object_params"> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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77 <param name="output_format" argument="--output-format" type="select" label="Format of output object"> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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78 <option value="anndata" selected="true">AnnData format hdf5</option> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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79 <option value="loom">Loom format hdf5, current support is defective</option> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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80 </param> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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81 </xml> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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82 <xml name="output_plot_params"> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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83 <param name="color_by" argument="--color-by" type="text" value="n_genes" label="Color by attributes, comma separated strings"/> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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84 <param name="groups" argument="--groups" type="text" optional="ture" label="Restrict plotting to named groups, comma separated strings"/> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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85 <param name="projection" argument="--projection" type="select" label="Plot projection"> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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86 <option value="2d" selected="true">2D</option> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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87 <option value="3d">3D</option> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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88 </param> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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89 <param name="components" argument="--components" type="text" value="1,2" label="Components to plot, comma separated integers"/> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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90 <param name="palette" argument="--palette" type="text" optional="true" label="Palette"/> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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91 <param name="use_raw" argument="--use-raw" type="boolean" checked="false" label="Use raw attributes if present"/> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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92 <param name="show_edges" argument="--edges" type="boolean" checked="false" label="Show edges"/> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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93 <param name="show_arrows" argument="--arrows" type="boolean" checked="false" label="Show arrows"/> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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94 <param name="color_order" argument="--no-sort-order" type="boolean" checked="true" label="Element with high color-by value plot on top"/> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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95 <param name="omit_frame" argument="--frameoff" type="boolean" checked="false" label="Show frame"/> |
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planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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96 </xml> |
885db50f1bc1
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/sccaf commit 39b0809db1e17c2a24930fe8fb8ceaf3ea454a7d
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97 </macros> |