97 Open source projects that are alternatives of or similar to arv

A fast 23andMe genome text file parser, now superseded by arv

A curated list of awesome bioinformatics software.

A package for designing compact and comprehensive capture probe sets.

tools for reading, writing, merging, and remapping SNPs

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

Official code repository for GATK versions 4 and up

Understand DNA structure and how machine learning can be used to work with DNA sequence data.

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

Datastructures and algorithms for working with genetic variation

Welcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC MSc Genetic Counselling Training Program, as they embark on a journey to learn about analyzing genomes.

Using artificial intelligence and genetic algorithms to automatically write programs. Tutorial: http://www.primaryobjects.com/cms/article149

Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.

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

A Framework for Coalescent Simulation in R

Download and use genomes the easy way.

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

PERF is an Exhaustive Repeat Finder

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

Estimate local SNP heritability and genetic covariance from GWAS summary association statistics.

waka waka

karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

An efficient index for the colored, compacted, de Bruijn graph

SuperPhy for the semantic web

A genome browser that shows long reads and complex variants better

dcHiC: Differential compartment analysis for Hi-C datasets

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

Wrapper to a number of SNP web APIs

Next generation sequencing reads de novo assembler.

Official git repository for Biopython (originally converted from CVS)

Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model

Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

An Efficient Swiss Army Knife for Population Genomic Analyses in R

🦄 An Artificial Inteligence to teach Google's Dinosaur to jump cactus

De novo annotation of young retrotransposons

parallelized blat with multi-threads support

🔬 Assemble large genomes using short reads

Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy

MUM&Co is a simple bash script that uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation

Graph based multi genome aligner

Genome Interval Arithmetic in R

Workflow for Building Microsynteny Networks

GenomeTools genome analysis system.

Research on polio / protein folding.

This is the code behind the www.impute.me site. It contains algorithms for personal genome analysis, including imputation and polygenic risk score calculation

Das Robert Koch-Institut stellt Systeme zur bundesweiten molekularen Surveillance des SRARS-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 übermittel…

Viral genomics analysis pipelines

Nanopore sequence read simulator

CoRA Docs

Genomic Data Retrieval with R

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

De novo assembly from Oxford Nanopore reads.

Jupyter Notebooks for learning the PyRosetta platform for biomolecular structure prediction and design

Genome annotation with AUGUSTUS

UGENE is free open-source cross-platform bioinformatics software

Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets

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

A collection of scripts and notes related to genomics and bioinformatics