Cloud-native genomic dataframes and batch computing

• UpdatedMar 11, 2025
• Python

C library for high-throughput sequencing data formats

• UpdatedMar 14, 2025
• C

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

• UpdatedFeb 2, 2024
• PHP

✂️ ⚡ Rapid haploid variant calling and core genome alignment

• UpdatedJul 19, 2024
• Perl

Haplotype VCF comparison tools

• UpdatedDec 7, 2023
• C++

cython + htslib == fast VCF and BCF processing

• UpdatedSep 16, 2024
• Cython

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

• UpdatedDec 9, 2024
• Perl

Toolset for SV simulation, comparison and filtering

• UpdatedDec 1, 2023
• C++

annotate a VCF with other VCFs/BEDs/tabixed files

• UpdatedNov 23, 2023
• Go

Structural variant toolkit for VCFs

• UpdatedMar 5, 2025
• Python

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

• UpdatedOct 12, 2023
• Python

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

• UpdatedJul 7, 2023
• Python

Genome browser and variant annotation

• UpdatedFeb 19, 2025
• C++

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

• UpdatedMar 13, 2025
• Java

Syntax highlighting for computational biology

• UpdatedMar 4, 2023
• Shell

Personal Cancer Genome Reporter (PCGR)

• UpdatedMar 15, 2025
• R

A collection of scripts and notes related to genomics and bioinformatics

• UpdatedFeb 10, 2025
• R

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

• UpdatedFeb 27, 2025
• C

Graph realignment tools for structural variants

• UpdatedDec 8, 2022
• C++

machine learning for genomic variants

• UpdatedOct 17, 2024
• JavaScript