Mercurial > repos > mheinzl > variant_analyzer2

comparison read2mut.py @ 56:371c09d4050b draft

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planemo upload for repository https://github.com/Single-Molecule-Genetics/VariantAnalyzerGalaxy/tree/master/tools/variant_analyzer commit ee4a8e6cf290e6c8a4d55f9cd2839d60ab3b11c8
author mheinzl
date Fri, 12 Mar 2021 14:22:03 +0000
parents 8fbe6aba07e5
children 706bf8b59eae
comparison
equal deleted inserted replaced
55:8fbe6aba07e5 56:371c09d4050b
1223 ("Tier 1.2", "both ab and ba SSCS present (>75% of the sites with alt. base) and mate pair validation (min. FS=1) and minimal FS>=3 for at least one of the SSCS"), 1223 ("Tier 1.2", "both ab and ba SSCS present (>75% of the sites with alt. base) and mate pair validation (min. FS=1) and minimal FS>=3 for at least one of the SSCS"),
1224 ("Tier 2.1", "both ab and ba SSCS present (>75% of the sites with alt. base) and minimal FS>=3 for at least one of the SSCS in at least one mate"), 1224 ("Tier 2.1", "both ab and ba SSCS present (>75% of the sites with alt. base) and minimal FS>=3 for at least one of the SSCS in at least one mate"),
1225 ("Tier 2.2", "both ab and ba SSCS present (>75% of the sites with alt. base) and mate pair validation (min. FS=1)"), 1225 ("Tier 2.2", "both ab and ba SSCS present (>75% of the sites with alt. base) and mate pair validation (min. FS=1)"),
1226 ("Tier 2.3", "both ab and ba SSCS present (>75% of the sites with alt. base) and minimal FS=1 for both SSCS in one mate and minimal FS>=3 for at least one of the SSCS in the other mate"), 1226 ("Tier 2.3", "both ab and ba SSCS present (>75% of the sites with alt. base) and minimal FS=1 for both SSCS in one mate and minimal FS>=3 for at least one of the SSCS in the other mate"),
1227 ("Tier 2.4", "both ab and ba SSCS present (>75% of the sites with alt. base) and minimal FS=1 for both SSCS in at least one mate"), 1227 ("Tier 2.4", "both ab and ba SSCS present (>75% of the sites with alt. base) and minimal FS=1 for both SSCS in at least one mate"),
1228 ("Tier 2.5", "variants at the start or end of the read and recurring mutation on this position in tier 1.1-2.4") 1228 ("Tier 2.5", "variants at the start or end of the read and recurring mutation on this position in tier 1.1-2.4"),
1229 ("Tier 3.1", "both ab and ba SSCS present (>50% of the sites with alt. base) and recurring mutation on this position"), 1229 ("Tier 3.1", "both ab and ba SSCS present (>50% of the sites with alt. base) and recurring mutation on this position"),
1230 ("Tier 3.2", "both ab and ba SSCS present (>50% of the sites with alt. base) and minimal FS>=1 for both SSCS in at least one mate"), 1230 ("Tier 3.2", "both ab and ba SSCS present (>50% of the sites with alt. base) and minimal FS>=1 for both SSCS in at least one mate"),
1231 ("Tier 4", "variants at the start or end of the reads"), 1231 ("Tier 4", "variants at the start or end of the reads"),
1232 ("Tier 5.1", "variant is close to softclipping in both mates"), 1232 ("Tier 5.1", "variant is close to softclipping in both mates"),
1233 ("Tier 5.2", "variant is close to softclipping in one of the mates"), 1233 ("Tier 5.2", "variant is close to softclipping in one of the mates"),