Nextflow pipeline for Mutect2 somatic variant calling best practices
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Jun 14, 2024 - Nextflow
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tronflow
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Nextflow pipeline for BWA, BWA2 and STAR alignments
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Jul 22, 2024 - Nextflow
Nextflow pipeline for the preprocessing of BAM files based on GATK best practices. Marking duplicates, realignment around indels, base quality score recalibration (BQSR) and reporting of metrics are optional to maintain flexibility for different use cases.
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Jul 4, 2024 - Nextflow
A Nextflow variant normalization pipeline based on vt and bcftools
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Jul 1, 2024 - Shell
A nextflow pipeline implementing GATK's HaplotypeCaller best practices
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Nov 11, 2022 - Nextflow
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