398 Open source projects that are alternatives of or similar to React Cytoscapejs

Deep learning infrastructure for bioinformatics

An efficient FASTQ manipulation suite

Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing

UGENE is free open-source cross-platform bioinformatics software

Python package for graph neural networks in chemistry and biology

Benchmarking programming languages/implementations for common tasks in Bioinformatics

Next generation sequencing reads de novo assembler.

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

Toolset for SV simulation, comparison and filtering

A Practical and Efficient NCBI Taxonomy Toolkit

R package for analyzing single-cell RNA-seq data

INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.

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

A collection of scripts and notes related to genomics and bioinformatics

Package for fetching metadata and downloading data from SRA/ENA/GEO

Inference of ploidy and heterozygosity structure using whole genome sequencing data

Reads simulator

Antimicrobial Resistance Identification By Assembly

parallel fastq-dump wrapper

A DSL for data-driven computational pipelines

RAxML Next Generation: faster, easier-to-use and more flexible

FastQC port to Qt5: A quality control tool for high throughput sequence data.

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

Bioinformatics library for .NET

Rapid large-scale prokaryote pan genome analysis

A robust and fast clustering method for amplicon-based studies

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data

A curated list of resources for learning bioinformatics.

A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.

MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentation and downloading the program, please see the home page:

Metadata and website for the Open Bio Ontologies Foundry Ontology Registry

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

Structural variant toolkit for VCFs

nim wrapper for htslib for parsing genomics data files

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

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

EDAM is an ontology of bioinformatics types of data including identifiers, data formats, operations and topics.

Simple simulation of single-cell RNA sequencing data

Bayesian genotyper for structural variants

Annotated data.

Biological sequences for the julia language

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

Intuitive local web frontend for the BLAST bioinformatics tool

Protein-Level ASSembler (PLASS): sensitive and precise protein assembler

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

The START App: R Shiny Transcriptome Analysis Resource Tool

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

Solutions to assignments of Coursera Specializations - Deep learning, Machine learning, Algorithms & Data Structures, Image Processing and Python For Everybody

🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results

Global Biotic Interactions provides access to existing species interaction datasets

A genome browser that shows long reads and complex variants better

Single cell perturbation prediction

🔬 BEDOPS: high-performance genomic feature operations

A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.

A powerful open source data warehouse system

Protein Graph Library

Fast Reference-Guided Scaffolding of Genome Assembly Contigs. RagTag, the successor to RaGOO, is now available here: https://github.com/malonge/RagTag

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