1944 Open source projects that are alternatives of or similar to Canvasxpress

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

NGLess: NGS with less work

An interactive web tool for quality control of DNA sequencing data

cython + htslib == fast VCF and BCF processing

Analysis pipelines for sequencing data

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

Antimicrobial Resistance Identification By Assembly

Inference of ploidy and heterozygosity structure using whole genome sequencing data

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

Bayesian haplotype-based mutation calling

Reads simulator

A versatile pairwise aligner for genomic and spliced nucleotide sequences

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

Express parametrable, composable and portable data pipelines

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

Bioinformatics library for .NET

GCP Essentials for Bioinformatics Researchers

A cool place to store your Hi-C

A fast whole-genome aligner based on de Bruijn graphs

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

Play detective on Reddit: Discover political disinformation campaigns, secret influencers and more

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

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

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.

Intuitive local web frontend for the BLAST bioinformatics tool

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

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

Official code repository for GATK versions 4 and up

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

Model and predict short DNA sequence features with neural networks

💥Free and open-source admin dashboard template built with Bootstrap 4.5 💥

Data intensive science for everyone.

Genomics Extension for SQLite

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

A DSL for data-driven computational pipelines

Bayesian genotyper for structural variants

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

A collection of scripts and notes related to genomics and bioinformatics

Official git repository for Biopython (originally converted from CVS)

📈 A small, fast chart for time series, lines, areas, ohlc & bars

🔬 BEDOPS: high-performance genomic feature operations

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

nim wrapper for htslib for parsing genomics data files

A tool to circularize genome assemblies

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

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

Rapid large-scale prokaryote pan genome analysis

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

An ultrafast memory-efficient short read aligner

A genome browser that shows long reads and complex variants better

A powerful open source data warehouse system

Deep learning infrastructure for bioinformatics

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

Scalable genomic data analysis.

📊 Cube — Open-Source Analytics API for Building Data Apps

Ten Quick Tips for Deep Learning in Biology

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

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