comparison test-data/1.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

11:fed4aa48ba09

# This file was produced by samtools stats (1.12+htslib-1.12) 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
# CHK, CRC32 of reads which passed filtering followed by addition (32bit overflow)
CHK	1a1c1362	29c426ae	7bab45da

RL	35	2
# Read lengths - first fragments. Use `grep ^FRL | cut -f 2-` to extract this part. The columns are: read length, count
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
# 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.
COV	[1-1]	1	70
# GC-depth. Use `grep ^GCD | cut -f 2-` to extract this part. The columns are: GC%, unique sequence percentiles, 10th, 25th, 50th, 75th and 90th depth percentile

12:541082d03bef

# 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
# CHK, CRC32 of reads which passed filtering followed by addition (32bit overflow)
CHK	1a1c1362	29c426ae	7bab45da

RL	35	2
# Read lengths - first fragments. Use `grep ^FRL | cut -f 2-` to extract this part. The columns are: read length, count
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.
COV	[1-1]	1	70
# GC-depth. Use `grep ^GCD | cut -f 2-` to extract this part. The columns are: GC%, unique sequence percentiles, 10th, 25th, 50th, 75th and 90th depth percentile