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bcbio.variation.ensemble.realign
Realignment based Ensemble calling approaches using inputs from multiple callers. Uses tools from the Marth lab and Erik Garrison to realign and recall given a set of possible variants in a genomic region.
Realignment based Ensemble calling approaches using inputs from multiple callers. Uses tools from the Marth lab and Erik Garrison to realign and recall given a set of possible variants in a genomic region.
by-regionclj
(by-region sample region vcf-files bam-file ref-file dirs e-dir config)Realign and recall variants in a defined genomic region.
Realign and recall variants in a defined genomic region.
by-region-multiclj
(by-region-multi vcf-files bam-files region ref-file dirs out-file config)Realign and recall variants in a region, handling multiple sample inputs.
Realign and recall variants in a region, handling multiple sample inputs.
ensemble-vcfsclj
(ensemble-vcfs orig-vcf-files bam-files ref-file out-file config)Combine VCF files with squaring off by recalling at uncalled variant positions.
Combine VCF files with squaring off by recalling at uncalled variant positions.
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