Cloud-native genomic dataframes and batch computing

C library for high-throughput sequencing data formats

:scissors: :zap: Rapid haploid variant calling and core genome alignment

This vCard PHP library can easily parse or generate/export vCards as .vcf

Haplotype VCF comparison tools

cython + htslib == fast VCF and BCF processing

Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms

Toolset for SV simulation, comparison and filtering

Structural variant toolkit for VCFs

annotate a VCF with other VCFs/BEDs/tabixed files

Genome browser and variant annotation

a calendar server aiming to be simple, fast and passwordless

Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

A Java API for high-throughput sequencing data (HTS) formats.

Personal Cancer Genome Reporter (PCGR)

Syntax highlighting for computational biology

A collection of scripts and notes related to genomics and bioinformatics

A framework for state-of-the-art pre-trained bio foundation models on genomics and transcriptomics modalities.

Automate deployment and configuration of nested VMware Software-Defined Data Center environments including solutions like vSphere, vSAN, NSX, vSphere Kubernetes Service, Avi Load Balancer, Aria Operations for Logs, VCF 9, VyOS, and ISC BIND.

A modern compressor for genomic files (FASTQ, SAM/BAM/CRAM, VCF, FASTA, GFF/GTF/GVF, 23andMe...), up to 5x better than gzip and faster too

Graph realignment tools for structural variants

The Pharmacogenomic Clinical Annotation Tool

Learning the Variant Call Format

machine learning for genomic variants

genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF

Bayesian genotyper for structural variants

VCF-kit: Assorted utilities for the variant call format

Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data

Application of pan-genome for population