Mercurial > repos > devteam > samtools_stats
diff test-data/11.stats.g4.expected @ 12:541082d03bef draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_stats commit 9c5a35ce695c3d134e41d8695487edd5f71ea33c
author | iuc |
---|---|
date | Sun, 08 Sep 2024 03:27:04 +0000 |
parents | e28839a4b932 |
children |
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--- a/test-data/11.stats.g4.expected Mon Nov 20 22:17:08 2023 +0000 +++ b/test-data/11.stats.g4.expected Sun Sep 08 03:27:04 2024 +0000 @@ -1,4 +1,4 @@ -# This file was produced by samtools stats (1.12+htslib-1.12) and can be plotted using plot-bamstats +# This file was produced by samtools stats (1.20+htslib-1.20) and can be plotted using plot-bamstats # This file contains statistics for all reads. # The command line was: stats -g 4 -@ 0 infile ref1:10-24 ref1:30-46 ref1:39-56 # CHK, Checksum [2]Read Names [3]Sequences [4]Qualities @@ -183,6 +183,32 @@ FRL 10 14 # Read lengths - last fragments. Use `grep ^LRL | cut -f 2-` to extract this part. The columns are: read length, count LRL 10 12 +# Mapping qualities for reads !(UNMAP|SECOND|SUPPL|QCFAIL|DUP). Use `grep ^MAPQ | cut -f 2-` to extract this part. The columns are: mapq, count +MAPQ 0 1 +MAPQ 1 1 +MAPQ 2 1 +MAPQ 3 1 +MAPQ 4 1 +MAPQ 5 1 +MAPQ 6 1 +MAPQ 7 1 +MAPQ 8 1 +MAPQ 9 1 +MAPQ 10 1 +MAPQ 11 1 +MAPQ 12 1 +MAPQ 13 1 +MAPQ 14 1 +MAPQ 15 1 +MAPQ 16 1 +MAPQ 17 1 +MAPQ 18 1 +MAPQ 19 1 +MAPQ 20 1 +MAPQ 21 1 +MAPQ 22 1 +MAPQ 23 1 +MAPQ 50 2 # Indel distribution. Use `grep ^ID | cut -f 2-` to extract this part. The columns are: length, number of insertions, number of deletions # Indels per cycle. Use `grep ^IC | cut -f 2-` to extract this part. The columns are: cycle, number of insertions (fwd), .. (rev) , number of deletions (fwd), .. (rev) # Coverage distribution. Use `grep ^COV | cut -f 2-` to extract this part.