The main aim of this little project is to compare the European allele frequencies of the 1k genomes project with the gnomad frequencies.
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Updated
May 4, 2017 - Python
The main aim of this little project is to compare the European allele frequencies of the 1k genomes project with the gnomad frequencies.
convert genotype array output into annotated IBD segments
Convert SV VCFs to BED, a wrapper for bcftools query
This script filters false positive alleles from poolseq VCF file created with bcftools.
Scripts used on a cluster that demonstrate vcf file manipulation and preparation.
Merge in parallel, speeding up bcftools merge
A collection of scripts for filtering annotated variant call format files
a tool for quickly getting the correct bcftools command
Reusable and maintained Luigi tasks to incorporate in bioinformatics pipelines
This directory contains material that I've used in different courses
1,674 S.cerevisiae genomics data
bcftools singularity container
Nextflow resequencing pipeline with bwa-mem and freebayes
VariantCaller is a wrapper for the 2022 gatk & bcftools best practices + phasing with WhatsHap.
Convert genomic coordinates from the Human Genome version 19 (hg19) to version 38 (hg38)
A Nextflow variant normalization pipeline based on vt and bcftools
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