Mercurial > repos > fubar > bbgbigwig_dev
changeset 2:460f523c8ff4 draft
planemo upload for repository https://www.encodeproject.org/software/bedgraphtobigwig/
| author | fubar |
|---|---|
| date | Fri, 14 Jun 2024 07:39:23 +0000 |
| parents | 49c6f715bc82 |
| children | 3899b3091d4a |
| files | bam_bed_gff_to_bigwig.xml |
| diffstat | 1 files changed, 4 insertions(+), 2 deletions(-) [+] |
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--- a/bam_bed_gff_to_bigwig.xml Fri Jun 14 06:47:20 2024 +0000 +++ b/bam_bed_gff_to_bigwig.xml Fri Jun 14 07:39:23 2024 +0000 @@ -1,4 +1,4 @@ -<tool id="bbgtobigwig" name="Convert BAM/BED/GFF to BigWig" version="0.1" profile="22.05"> +<tool id="bbgtobigwig" name="Convert BAM BED GFF to BigWig" version="0.1" profile="22.05"> <requirements> <requirement type="package" version="455">ucsc-bedgraphtobigwig</requirement> <requirement type="package" version="2.31.1">bedtools</requirement> @@ -93,7 +93,9 @@ Estimates coverage of a reference genome for bam, bed or gff as a bigwig, suitable for viewing in JBrowse2 or other browser. - If the input does not have a dbkey, a chromosome lengths file must be provided. The actual reference is not needed. + A chromosome lengths file must be provided if the input has a missing dbkey='?' on the pencil (edit attributes) tab. + + The actual reference is not needed. The Compute sequence length tool can generate the lengths file. This can be useful in workflows with assemblies in progress before a stable reference is available for a custom or built in reference dbkey.