Nextflow Modules
Showing module(s) with keyword "mutect2"
| Module | Keywords | Description |
|---|---|---|
| nf-core/gatk4/filtermutectcalls | filtermutectcalls filter gatk4 mutect2 vcf | Filters the raw output of mutect2, can optionally use outputs of calculatecontamination and learnreadorientationmodel to improve filtering. |
| nf-core/gatk4/learnreadorientationmodel | gatk4 learnreadorientationmodel mutect2 readorientationartifacts | Uses f1r2 counts collected during mutect2 to Learn the prior probability of read orientation artifacts |
| nf-core/gatk4/mergemutectstats | gatk4 merge mutect2 mutectstats | Merges mutect2 stats generated on different intervals/regions |
| nf-core/gatk4/mutect2 | gatk4 haplotype indels mutect2 snvs somatic | Call somatic SNVs and indels via local assembly of haplotypes. |
| nf-core/parabricks/mutectcaller | variant vcf mutect2 mutect somatic | NVIDIA Clara Parabricks GPU-accelerated somatic variant calling, replicating GATK Mutect2. |