Nextflow Registry | Nextflow Pipelines

Nextflow Pipelines

Nextflow pipelines hosted in Git repositories. Each published release records the Git revision it runs and the launch configuration it ships with.

9 pipeline(s) matching "variant-calling".

Pipeline	Keywords	Description
nf-core/deepvariant 1.0.0	deep-variant dna google variant-calling	Please consider using/contributing to https://github.com/nf-core/sarek
nf-core/exoseq 0.0.0-600fad3	exome exome-sequencing genomics variant-calling	Please consider using/contributing to https://github.com/nf-core/sarek
nf-core/pacvar 1.1.0	alignment long-read pacbio puretarget +2	Longread PacBio sequencing processing for WGS and PureTarget
nf-core/raredisease 3.1.2	diagnostics rare-disease snv structural-variants +4	Call and score variants from WGS/WES of rare disease patients.
nf-core/rnavar 1.3.0	gatk4 rna rnaseq variant-calling +1	gatk4 RNA variant calling pipeline
nf-core/sarek 3.10.0	annotation cancer gatk4 genomics +7	Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
nf-core/variantbenchmarking 1.5.0	benchmark small-variants structural-variants variant-calling	Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
nf-core/vipr 0.0.0-6eef3b3	genome-assembly metagenomics variant-calling viral +5	Assembly and intrahost / low-frequency variant calling for viral samples
nf-core/viralrecon 3.0.0	amplicon artic assembly covid-19 +11	Assembly and intrahost/low-frequency variant calling for viral samples