398 Open source projects that are alternatives of or similar to Mixcr

A Practical and Efficient NCBI Taxonomy Toolkit

Antimicrobial Resistance Identification By Assembly

Single cell perturbation prediction

Benchmarking programming languages/implementations for common tasks in Bioinformatics

A robust and fast clustering method for amplicon-based studies

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

A collection of scripts and notes related to genomics and bioinformatics

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:

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

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

UGENE is free open-source cross-platform bioinformatics software

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

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

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

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

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.

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

Inference of ploidy and heterozygosity structure using whole genome sequencing data

parallel fastq-dump wrapper

A DSL for data-driven computational pipelines

Application for making ENCODE Blacklists

Bioinformatics library for .NET

nim wrapper for htslib for parsing genomics data files

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

APBS - software for biomolecular electrostatics and solvation

Bio4j abstract model and general entry point to the project

Post-analysis of immune repertoire sequencing data

Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

Python module for average nucleotide identity analyses

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

Pegasus Workflow Management System - Automate, recover, and debug scientific computations.

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

SortMeRNA: next-generation sequence filtering and alignment tool

ECG classification programs based on ML/DL methods

A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)

Bayesian haplotype-based mutation calling

pymzML - an interface between Python and mzML Mass spectrometry Files

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

Demonstrating best practices for bioinformatics command line tools

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

✏️ A versatile DNA sequence optimizer

A tool to circularize genome assemblies

GCP Essentials for Bioinformatics Researchers

A comprehensive library for computational molecular biology

Race and ethnicity Imputation from Disease history with Deep LEarning

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

Genomics Extension for SQLite

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

MOLGENIS - for scientific data: management, exploration, integration and analysis.

NGLess: NGS with less work

A curated list of awesome Bioinformatics libraries and software.

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

A cool place to store your Hi-C

R package for analyzing single-cell RNA-seq data

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

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

Simple simulation of single-cell RNA sequencing data

An efficient FASTQ manipulation suite