Mercurial > repos > matthias > samtools_flagstat

annotate samtools_phase/test-data/samtools_phase_out_1_log.txt @ 2:d7a81b3c7303 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit f10a2b16814f61326750364c497ad143cac3d137-dirty
author matthias
date Mon, 25 Feb 2019 03:53:00 -0500
parents 8f08fd44a749
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
1 CC
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
2 CC Descriptions:
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
3 CC
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
4 CC CC comments
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
5 CC PS start of a phase set
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
6 CC FL filtered region
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
7 CC M[012] markers; 0 for singletons, 1 for phased and 2 for filtered
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
8 CC EV supporting reads; SAM format
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
9 CC // end of a phase set
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
10 CC
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
11 CC Formats of PS, FL and M[012] lines (1-based coordinates):
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
12 CC
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
13 CC PS chr phaseSetStart phaseSetEnd
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
14 CC FL chr filterStart filterEnd
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
15 CC M? chr PS pos allele0 allele1 hetIndex #supports0 #errors0 #supp1 #err1
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
16 CC
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
17 CC
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
18 PS chrI 1187 1290
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
19 M1 chrI 1187 1187 T A 1 2 0 4 0
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
20 M1 chrI 1187 1216 T A 2 3 0 4 0
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
21 M1 chrI 1187 1222 C A 3 3 0 3 1
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
22 M1 chrI 1187 1290 A T 4 1 0 0 0
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
23 EV 0 chrI 1 40 3M * 0 0 AAA * YP:i:1 YF:i:0 YI:i:3 YO:i:0 YS:i:1145
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
24 EV 0 chrI 1 40 3M * 0 0 TTC * YP:i:0 YF:i:0 YI:i:3 YO:i:0 YS:i:1157
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
25 EV 0 chrI 1 40 3M * 0 0 TTC * YP:i:0 YF:i:0 YI:i:3 YO:i:0 YS:i:1141
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
26 EV 0 chrI 1 40 3M * 0 0 AAA * YP:i:1 YF:i:0 YI:i:3 YO:i:0 YS:i:1147
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
27 EV 0 chrI 1 40 3M * 0 0 AAA * YP:i:1 YF:i:0 YI:i:3 YO:i:0 YS:i:1176
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
28 EV 0 chrI 1 40 3M * 0 0 AAC * YP:i:1 YF:i:0 YI:i:2 YO:i:1 YS:i:1164
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
29 EV 0 chrI 2 40 3M * 0 0 TCA * YP:i:0 YF:i:0 YI:i:3 YO:i:0 YS:i:1215
8f08fd44a749 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools commit 17bfa0739bf7c72cf92de0d7013437dff2bbba7f-dirty
matthias
parents:
diff changeset
30 //