Mercurial > repos > fubar > bbgbigwig_dev

comparison bam_bed_gff_to_bigwig.xml @ 5:f132065ac170 draft

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planemo upload for repository https://www.encodeproject.org/software/bedgraphtobigwig/
author fubar
date Sat, 15 Jun 2024 08:34:13 +0000
parents 3899b3091d4a
children 4043d4155909
comparison
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4:78e7461e8946 5:f132065ac170
1 <tool id="bbgtobigwig_dev" name="BAM BED GFF coverage bigWigs" version="0.1" profile="22.05"> 1 <tool id="bbgtobigwig" name="BAM BED GFF coverage bigWigs" version="0.1" profile="22.05">
2 <xrefs> 2 <xrefs>
3 <xref type="bio.tools">UCSC_Genome_Browser_Utilities</xref> 3 <xref type="bio.tools">UCSC_Genome_Browser_Utilities</xref>
4 </xrefs> 4 </xrefs>
5 <requirements> 5 <requirements>
6 <requirement type="package" version="455">ucsc-bedgraphtobigwig</requirement> 6 <requirement type="package" version="455">ucsc-bedgraphtobigwig</requirement>
94 </tests> 94 </tests>
95 <help> 95 <help>
96 96
97 Estimates coverage of a reference genome for bam, bed or gff as a bigwig, suitable for viewing in JBrowse2 or other browser. 97 Estimates coverage of a reference genome for bam, bed or gff as a bigwig, suitable for viewing in JBrowse2 or other browser.
98 98
99 A chromosome lengths file must be provided if the input has a missing dbkey='?' on the pencil (edit attributes) tab. 99 A chromosome lengths file must be provided if the input has a missing dbkey (='?') on the pencil (edit attributes) form.
100 100
101 The actual reference is not needed. The Compute sequence length tool can generate the lengths file. 101 The actual reference is not needed. The Compute sequence length tool can generate the lengths file.
102 102
103 This can be useful in workflows with assemblies in progress before a stable reference is available for a custom or built in reference dbkey. 103 This can be useful in workflows with assemblies in progress before a stable reference is available for a custom or built in reference dbkey.
104 104