Mercurial > repos > devteam > samtools_flagstat

annotate test-data/samtools_flagstat_out1.tsv @ 8:fefd89ab563c draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit cd62639660bef041ba14ecff337fb98e84e75d8a
author iuc
date Mon, 20 Nov 2023 22:15:35 +0000
parents fe34990e5ce7
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
7
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
1 200 0 total (QC-passed reads + QC-failed reads)
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
2 200 0 primary
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
3 0 0 secondary
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
4 0 0 supplementary
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
5 0 0 duplicates
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
6 0 0 primary duplicates
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
7 25 0 mapped
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
8 12.50% N/A mapped %
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
9 25 0 primary mapped
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
10 12.50% N/A primary mapped %
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
11 200 0 paired in sequencing
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
12 100 0 read1
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
13 100 0 read2
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
14 0 0 properly paired
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
15 0.00% N/A properly paired %
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
16 0 0 with itself and mate mapped
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
17 25 0 singletons
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
18 12.50% N/A singletons %
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
19 0 0 with mate mapped to a different chr
fe34990e5ce7 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_flagstat commit 0f75269223c0821c6c82acf98fde947d0f816f2b"
iuc
parents:
diff changeset
20 0 0 with mate mapped to a different chr (mapQ>=5)