590 Open source projects that are alternatives of or similar to Ribbon

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

GenomeTools genome analysis system.

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.

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

Official code repository for GATK versions 4 and up

A package for designing compact and comprehensive capture probe sets.

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

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

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

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

Bayesian haplotype-based mutation calling

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

The next version of bwa-mem

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

Tools to process and analyze deep sequencing data.

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

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

A collection of publications on comparison of high-throughput sequencing technologies.

Analysis pipelines for sequencing data

Scalable genomic data analysis.

A versatile pairwise aligner for genomic and spliced nucleotide sequences

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

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

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

An interactive web tool for quality control of DNA sequencing data

Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing

Genomic Data Retrieval with R

Python library to facilitate genome assembly, annotation, and comparative genomics

📖🔬☕️ BioJava is an open-source project dedicated to providing a Java library for processing biological data.

A modern genome browser built with JavaScript and HTML5.

Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

Scripts to download genomes from the NCBI FTP servers

Rapid large-scale prokaryote pan genome analysis

A fast and sensitive gapped read aligner

Efficient variant-call data storage and retrieval library using the TileDB storage library.

nim wrapper for htslib for parsing genomics data files

Data intensive science for everyone.

Genomics Extension for SQLite

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

Model and predict short DNA sequence features with neural networks

Ultra-fast and memory-efficient (meta-)genome assembler

Viral genomics analysis pipelines

Next generation sequencing reads de novo assembler.

Flexible genotype query among 30,000+ samples whole-genome

List of tools and resources related to the 10x Genomics GEMCode/Chromium system

Bayesian genotyper for structural variants

🌈Scaffold genome sequence assemblies using linked read sequencing data

Code examples of fast and simple k-mer counters for tutorial purposes

A fast whole-genome aligner based on de Bruijn graphs

Bioinformatics library for .NET

Ten Quick Tips for Deep Learning in Biology

A tool to circularize genome assemblies

Inference of ploidy and heterozygosity structure using whole genome sequencing data

A collection of scripts and notes related to genomics and bioinformatics

HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.

Antimicrobial Resistance Identification By Assembly

A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)

A cool place to store your Hi-C