748 Open source projects that are alternatives of or similar to awesome-genetics

A fast 23andMe genome text file parser, now superseded by arv

Analysis pipelines for sequencing data

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

Efficient pythonic random access to fasta subsequences

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

Data intensive science for everyone.

Python and C++ code for reading and writing genomics data.

A package for designing compact and comprehensive capture probe sets.

Official git repository for Biopython (originally converted from CVS)

A fast 23andMe DNA parser and inferrer for Python

Official code repository for GATK versions 4 and up

A collection of scripts and notes related to genomics and bioinformatics

Provide R access to the NCI Genomic Data Commons portal.

Ten Quick Tips for Deep Learning in Biology

Bystro genetic analysis (annotation, filtering, statistics)

A powerful open source data warehouse system

A genome browser that shows long reads and complex variants better

Intuitive local web frontend for the BLAST bioinformatics tool

netSmooth: A Network smoothing based method for Single Cell RNA-seq imputation

cython + htslib == fast VCF and BCF processing

JavaScript VisualizationTools

Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

Genome-wide imputation pipeline

🔬 BEDOPS: high-performance genomic feature operations

programs and scripts, mainly python, for analyses related to nucleic or protein sequences

Manhattan plot Generator

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

Fast and flexible ORF finder

Reads simulator

Deep learning infrastructure for bioinformatics

Rapid large-scale prokaryote pan genome analysis

GenomeTools genome analysis system.

Proof-of-concept seq-to-graph mapper and graph generator

goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary

An ultrafast memory-efficient short read aligner

R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)

Haplotype VCF comparison tools

Ultrafast de novo assembly for long noisy reads (though having no consensus step)

Easy genetic ancestry predictions in Python

Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data

An open-access bioinformatics text

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

A curated list of bioinformatics bench-marking papers and resources.

Compute N50/NG50 and auN/auNG

Numerical Encoding for Human Genetic Variants

A tool to plot significant regions of GWAS

convert 23andme or Ancestry.com raw genotype calls into VCF format, with dbSNP annotations

A package for designing activity-informed nucleic acid diagnostics for viruses.

Resource of human chromosome schematics & images

Binomica Public Repository for Biological Parts

A faster lmm for GWAS. Supports GPU backend.

Forward-time simulation in Python using fwdpp

A fast, scalable, and accurate local ancestry method.

A simple command-line tool to download data from Joint Genome Institute databases

Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads

dysgu-SV is a collection of tools for calling structural variants using short or long reads

A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment

Elastic, reproducible, and reusable genomic data science tools from R backed by cloud resources

Toolkit for preparing genomes for submission to NCBI

Simple pure Python SAM parser and objects for working with SAM records