gvcf

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Here are 9 public repositories matching this topic...

varda / varda2_preprocessing

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Extract coverage information from gVCF and variants from VCF files and output in tabular format.

coverage ngs bed gvcf

Updated Jan 24, 2024
Python

biotec-line / VFDistiller

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Local-first VCF/gVCF genetic variant annotation desktop app for research use only (Windows, 23andMe, FASTA, gnomAD)

Updated Sep 23, 2026
Python

shanghungshih / GVCFiltering

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Filtering vcf with population gvcf

vcf variant-filtration gvcf

Updated Feb 13, 2019
Java

SWEEP-Inc / GVCF

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SWEEP - Joint variant calling workflow based on GATK best practices.

sweep gvcf gatk-joint-variant-calling-workflow

Updated Mar 31, 2022
Shell

biotec-line / .github

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biotec-line organization profile for local-first bioinformatics, VCF, genotype conversion, and research-use-only genetic variant tools

Updated Sep 23, 2026
Python

nicolo-tellini / S.cerevisiaeData

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1,674 S.cerevisiae genomics data

data-science data opensource bioinformatics genomics bwa bcftools gvcf cerevisae

Updated Nov 16, 2024
Shell

JacquemontLab / gVCF2CNV

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Nextflow pipeline for deriving LRR and BAF signals from WGS gVCF files for scalable CNV detection.

bioinformatics nextflow cnv copy-number-variation whole-genome-sequencing lrr baf gvcf penncnv quantisnp

Updated Sep 1, 2026
Shell

ryanhmiller / joint-call-gvcfs

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Nextflow pipeline for joint-calling cohort gVCFs on Slurm HPC. GenomicsDBImport -> GenotypeGVCFs -> bcftools concat. Resumable, designed for ~1,500-sample human WGS.

bioinformatics nextflow slurm gatk variant-calling gvcf joint-calling

Updated Jul 6, 2026
Nextflow

0-Ioniel-0 / guppy_MR

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Repository for scripts used to estimate guppy (Poecilia reticulata) mutation rate.

python vcf bam samtools denovo bcftools mutation-rate gvcf gatk4

Updated Sep 2, 2024
Python

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