Mercurial > repos > iuc > bedtools
comparison bedToIgv.xml @ 26:95a3b2c25bd1 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit b75b9e79cf3186a22dc2e1e9d27c1a080b891b59
author | iuc |
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date | Thu, 26 Apr 2018 17:02:46 -0400 |
parents | 7b3aaff0d78c |
children | 4f7a5ccd2ae9 |
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25:e36671a0f646 | 26:95a3b2c25bd1 |
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18 -img $img | 18 -img $img |
19 > '$output' | 19 > '$output' |
20 ]]> | 20 ]]> |
21 </command> | 21 </command> |
22 <inputs> | 22 <inputs> |
23 <param format="bed,gff,gff3,vcf" name="input" type="data" label="Create IGV batch script the following BED file"/> | 23 <param format="@STD_BEDTOOLS_INPUTS@" name="input" type="data" label="Create IGV batch script for this @STD_BEDTOOLS_INPUT_LABEL@ file"/> |
24 <param name="sort" type="select" label="Sort BAM file by" help="The type of BAM sorting you would like to apply to each image."> | 24 <param name="sort" type="select" label="Sort BAM file by" help="The type of BAM sorting you would like to apply to each image."> |
25 <option value="">No sorting at all (default)</option> | 25 <option value="">No sorting at all (default)</option> |
26 <option value="base">base</option> | 26 <option value="base">base</option> |
27 <option value="position">position</option> | 27 <option value="position">position</option> |
28 <option value="strand">strand</option> | 28 <option value="strand">strand</option> |
50 </tests> | 50 </tests> |
51 <help> | 51 <help> |
52 <![CDATA[ | 52 <![CDATA[ |
53 **What it does** | 53 **What it does** |
54 | 54 |
55 Creates a batch script to create IGV images at each interval defined in a BED/GFF/VCF file. | 55 Creates a batch script to create IGV images at each interval defined in a @STD_BEDTOOLS_INPUT_LABEL@ file. |
56 | 56 |
57 **Notes** | 57 **Notes** |
58 | 58 |
59 (1) The resulting script is meant to be run from within IGV. | 59 (1) The resulting script is meant to be run from within IGV. |
60 (2) It is assumed that prior to running the script, you've loaded the proper genome and tracks. | 60 (2) It is assumed that prior to running the script, you've loaded the proper genome and tracks. |