Please consider using/contributing to https://github.com/nf-core/sarek
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Updated
Jan 3, 2019 - Nextflow
Please consider using/contributing to https://github.com/nf-core/sarek
demo pipeline for testing different data chunking methods for MuTect2
Assembly and intrahost / low-frequency variant calling for viral samples
a better freebayes-parallel
Please consider using/contributing to https://github.com/nf-core/sarek
Strelka2 nextflow pipeline
GATK RNA-Seq Variant Calling in Nextflow
Variant Calling Pipeline Using GATK4 and Nextflow
Pipeline to perform alignment & variant calling on whole-genome sequence data
NextFlow pipeline for mitochondria sequence reconstruction
Perform read mapping and variant calling using snippy
Nextflow pipeline for plasmodium SNP calling
Nextflow bioinformatics pipeline for large-scale analysis of Multiple Myeloma genomes
Call and score variants from WGS/WES of rare disease patients.
Assembly and intrahost/low-frequency variant calling for viral samples
Pipeline for SNP Calling Created in Nextflow management system for purposesof testing the advantages of managed systems vs native applications in variant calling. The paper created and published one day is titled "NextFlow vs. plain Bash: Different Approaches to the Parallelisation of SNP Calling from the Whole Genome Sequence Data"
Flujos de trabajos desarrollados y automatizados en el INMEGEN para el procesamiento de datos genómicos y transcriptómicos.
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
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