Mercurial > repos > devteam > samtools_stats
diff test-data/2.stats.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/2.stats.expected Mon Nov 20 22:17:08 2023 +0000 +++ b/test-data/2.stats.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 --ref-seq reference.fa -@ 0 infile # CHK, Checksum [2]Read Names [3]Sequences [4]Qualities @@ -419,6 +419,8 @@ FRL 35 1 # Read lengths - last fragments. Use `grep ^LRL | cut -f 2-` to extract this part. The columns are: read length, count LRL 35 1 +# 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 40 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.