569 Open source projects that are alternatives of or similar to Awesome 10x Genomics

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

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

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.

A React web application to query and share any PostgreSQL database.

Assembling the cause of phenotypes and genotypes from NGS data

Bioinformatics library for .NET

Genomics Extension for SQLite

Inference of ploidy and heterozygosity structure using whole genome sequencing data

BACNET is a Java based platform to develop website for multi-omics analysis

A cool place to store your Hi-C

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

Bystro genetic analysis (annotation, filtering, statistics)

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

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

Bayesian haplotype-based mutation calling

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

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

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

Reads simulator

A tool to circularize genome assemblies

GenomeTools genome analysis system.

A genome browser that shows long reads and complex variants better

Data intensive science for everyone.

Deep learning infrastructure for bioinformatics

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

🔬 BEDOPS: high-performance genomic feature operations

Scalable genomic data analysis.

Scripts to download genomes from the NCBI FTP servers

A faster lmm for GWAS. Supports GPU backend.

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

Toolkit for preparing genomes for submission to NCBI

Haplotype VCF comparison tools

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

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

A package for designing compact and comprehensive capture probe sets.

JavaScript VisualizationTools

cython + htslib == fast VCF and BCF processing

Earl Grey: A fully automated TE curation and annotation pipeline

A comprehensive tutorial about GWAS and PRS

A fast and sensitive gapped read aligner

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

Python Programming for Biologists

🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files

😎 A curated list of software and resources for exploring and visualizing (browsing) expression data 😎

Compressor for genomic files (FASTQ, SAM/BAM, VCF, FASTA, GVF, 23andMe...), up to 5x better than gzip and faster too

UNCURL is a tool for single cell RNA-seq data analysis.

Single-Cell Analysis in Python. Scales to >1M cells.

Support Vector Structural Variation Genotyper

A full spaCy pipeline and models for scientific/biomedical documents.

Estimate metagenomic coverage and sequence diversity

Global Biotic Interactions provides access to existing species interaction datasets

Emperor a tool for the analysis and visualization of large microbial ecology datasets

🐣 locally query the ncbi taxonomy

Javascript full-stack framework for Big Data visualisation and analysis

Framework for building fast genomics web tools with WebAssembly and WebWorkers

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

compacted de Bruijn graph construction in low memory

Yet Another Chimeric Read Detector

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