A visualization grammar and GPU-accelerated toolkit for genomic data

HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data

Interactive visualizer ad manual scaffolder of Hi-C contact maps. All-in-one Java-based implementation.

Official code repository for GATK versions 4 and up

Genome Interval Arithmetic in R

Das Robert Koch-Institut stellt Systeme zur bundesweiten molekularen Surveillance des SARS-CoV-2-Virus bereit. Jedes Labor in Deutschland, das SARS-CoV-2 sequenziert, ist laut der Verordnung zur molekulargenetischen Surveillance des Coronavirus SARS-CoV-2 verpflichtet, dem Robert Koch-Institut die Sequenz- und zugehörige Metadaten zu übermitteln.

The genome of the contractile demosponge Tethya wilhelma

Evaluating genome assemblies

Personal Website with Blogposts, Achievements and Ideas

Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!

Synteny Mapping and Analysis Program

Nextflow pipeline to assemble genomes from nanopore reads.

This is a python package for genomics study with a GCN framework.

An R package to compute the autimorphisms between pairwise aligned DNA sequences represented as elements from a Genomic Abelian group as described in the paper [Genomic Abelian Finite Groups](https://www.biorxiv.org/content/10.1101/2021.06.01.446543v2)

Recent awesome AI papers about genomics.

Genome annotation with AUGUSTUS

Align chip probes to a reference genome

a genome reference estimation based on the peak size calibration coming from the flow cytometry

genome annotation analyzer for the microbiome analysis

sra cloner and interacts with the nucleotide sra and allows for multiple sra fetcher