🍬A set of tools that keep Java sweet.

The official home of the Presto distributed SQL query engine for big data

OpenRefine is a free, open source power tool for working with messy data and improving it

LIBSVM -- A Library for Support Vector Machines

Official code repository for GATK versions 4 and up

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

OWL API main repository

Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations

Java utilities for Bioinformatics

A quality control analysis tool for high throughput sequencing data

PyTorch Implementation of BioBERT

RTG Tools: Utilities for accurate VCF comparison and manipulation

GRIDSS: the Genomic Rearrangement IDentification Software Suite

Visualization and analysis software for Hi-C data -

A Tool to Annotate and Prioritize Exome Variants

Various algorithms for analysing genomics data

Jasmine: SV Merging Across Samples

VarDict Java port

Software for aligning viewing and editing dna/aminoacid sequences, intuitive, fast and lightweight. Download and website:

Genome Pair Rapid Dotter

Annotation of VCF variants with functional impact and from databases (executable+library)

Swift/T: High Performance Parallel Scripting Language

Code for phasing SVs with SNPs

The hap-ibd program detects identity-by-descent segments in phased genotype data.

Simple XML to CSV conversion utility

A phenotype-based tool for variant prioritization in WES and WGS data

LIkelihood Ratio Interpretation of Clinical AbnormaLities