# HG changeset patch # User iuc # Date 1747400251 0 # Node ID f4f7f632815d516eeaad6dd474e7eff8c2f1aaa5 # Parent c4ff13d2aab39062269bf88470192a3a9c81057f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/sam_to_bam commit f79f470b3b2516fb908f5fc6fadc05c626c7f8dc diff -r c4ff13d2aab3 -r f4f7f632815d macros.xml --- a/macros.xml Thu Jun 29 10:40:07 2023 +0000 +++ b/macros.xml Fri May 16 12:57:31 2025 +0000 @@ -5,8 +5,15 @@ - 1.15.1 - 20.05 + + 1.20 + 2 + 22.05 - - @misc{SAM_def, - title={Definition of SAM/BAM format}, - url = {https://samtools.github.io/hts-specs/},} - - 10.1093/bioinformatics/btp352 - 10.1093/bioinformatics/btr076 - 10.1093/bioinformatics/btr509 - - @misc{Danecek_et_al, - Author={Danecek, P., Schiffels, S., Durbin, R.}, - title={Multiallelic calling model in bcftools (-m)}, - url = {http://samtools.github.io/bcftools/call-m.pdf},} - - - @misc{Durbin_VCQC, - Author={Durbin, R.}, - title={Segregation based metric for variant call QC}, - url = {http://samtools.github.io/bcftools/rd-SegBias.pdf},} - - - @misc{Li_SamMath, - Author={Li, H.}, - title={Mathematical Notes on SAMtools Algorithms}, - url = {http://www.broadinstitute.org/gatk/media/docs/Samtools.pdf},} - - - @misc{SamTools_github, - title={SAMTools GitHub page}, - url = {https://github.com/samtools/samtools},} - + 10.1093/gigascience/giab008 diff -r c4ff13d2aab3 -r f4f7f632815d samtools_coverage.xml --- a/samtools_coverage.xml Thu Jun 29 10:40:07 2023 +0000 +++ b/samtools_coverage.xml Fri May 16 12:57:31 2025 +0000 @@ -1,5 +1,5 @@ - - computes the depth at each position or region + + Produces a histogram or table of coverage per chromosome macros.xml