546 Open source projects that are alternatives of or similar to Awesome Cheminformatics

🔬 Assemble large genomes using short reads

Open Drug Discovery Toolkit

Reads simulator

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

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database

Quickly search, compare, and analyze genomic and metagenomic data sets.

GenomeTools genome analysis system.

Web-based 3D molecule editor and visualizer with molecular mechanics calculators.

React component for Cytoscape.js network visualisations

Python for chemoinformatics

A deep learning framework for molecular docking

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

Core BioPerl 1.x code

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

Protein Graph Library

Bayesian haplotype-based mutation calling

A curated list of resources for learning bioinformatics.

A comprehensive library for computational molecular biology

Python for Bioinformatics

An application based on Python and designed as a solution for geology related daily work.

Examples of using deep learning in Bioinformatics

Fast multi-line FASTA/Q reader in several programming languages

Ten Quick Tips for Deep Learning in Biology

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

Genome assembly evaluation tool

Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files according to 📝 Salentin et al. (2015), https://www.doi.org/10.1093/nar/gkv315

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

ECG classification programs based on ML/DL methods

Official git repository for Biopython (originally converted from CVS)

cython + htslib == fast VCF and BCF processing

Remote protein homology detection suite.

Deep Reinforcement Learning for de-novo Drug Design

Rapid large-scale prokaryote pan genome analysis

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

Curated list of known efforts in materials informatics

Cuneiform distributed programming language

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

Notebook-integrated tools for molecular simulation and visualization

code for reading and processing Allen Institute for Brain Science data

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

Single cell perturbation prediction

A tool for retrosynthetic planning

Curated (meta)list of resources for Biology.

A tool to circularize genome assemblies

NWChem: Open Source High-Performance Computational Chemistry

Python version of the amazing Reaction Mechanism Generator (RMG).

DWSIM - Open Source Chemical Process Simulator (5.x series)

Application for making ENCODE Blacklists

Periodic elements data

Annotated data.

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

dna2vec: Consistent vector representations of variable-length k-mers

Intuitive local web frontend for the BLAST bioinformatics tool

A repository for setting up a RNAseq workflow

NGLess: NGS with less work

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

A cool place to store your Hi-C

Strelka2 germline and somatic small variant caller

Analytical Web Apps for Python, R, Julia, and Jupyter. No JavaScript Required.