Open Source Libs
Find Open Source Packages
Open Source Libraries
👉
Bioinformatics Tool
41 Open Source Bioinformatics Tool Software Projects
Free and open source bioinformatics tool code projects including engines, APIs, generators, and tools.
Abricate
193 ⭐
:mag_right: :pill: Mass screening of contigs for antimicrobial and virulence genes
Trimal
102 ⭐
A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 2.0
Open Cravat
71 ⭐
A modular annotation tool for genomic variants
Mnnpy
45 ⭐
An implementation of MNN (Mutual Nearest Neighbors) correct in python.
Snakecharm
45 ⭐
Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.
Fluentdna
50 ⭐
FluentDNA allows you to browse sequence data of any size using a zooming visualization similar to Google Maps. You can use FluentDNA as a standalone program or as a python module for your own bioinformatics projects.
Tigmint
42 ⭐
⛓ Correct misassemblies using linked AND long reads
Rna Bloom
41 ⭐
:hibiscus: reference-free transcriptome assembly for short and long reads
Htstream
36 ⭐
A high throughput sequence read toolset using a streaming approach facilitated by Linux pipes
Lightdock
80 ⭐
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
Metacache
39 ⭐
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
Clincnv
38 ⭐
Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data
Webservice Clients
34 ⭐
A collection of Web Service Clients to consume EBI's tools via REST and SOAP APIs.
Phigaro
30 ⭐
Phigaro is a scalable command-line tool for predicting phages and prophages
Covtobed
31 ⭐
⛰ covtobed | Convert the coverage track from a BAM file into a BED file
Mview
22 ⭐
MView extracts and reformats the results of a sequence database search or multiple alignment.
Nsga Ii
30 ⭐
an implementation of NSGA-II in java
Phat
17 ⭐
Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform
Speciesprimer
20 ⭐
The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacterial species in complex ecosystems.
Hmmhc
12 ⭐
MHC class II binding prediction
Biosmalltalk
11 ⭐
Bioinformatics Library for Pharo Smalltalk
Physlr
13 ⭐
:chains: Construct a Physical Map from Linked Reads
Sopang
11 ⭐
SOPanG, a simple tool for pattern matching over an elastic-degenerate string, a recently proposed simplified model for the pan-genome.
Deepcoil
16 ⭐
Fast and accurate prediction of coiled coil domains in protein sequences.
Guobioinfolab Catt
18 ⭐
An ultra-sensitive and precise tool for characterizing T cell CDR3 sequences in TCR-seq and RNA-seq data.
Geneview
37 ⭐
Genomics data visualization in Python by using matplotlib.
Bioblender21
43 ⭐
Blender plugin to process biological data and molecular work.
Ilearnplus
40 ⭐
iLearnPlus is the first machine-learning platform with both graphical- and web-based user interface that enables the construction of automated machine-learning pipelines for computational analysis and predictions using nucleic acid and protein sequences.
Seqfu2
26 ⭐
:rocket: seqfu - Sequece Fastx Utilities
Biodiscml
17 ⭐
Large-scale automatic feature selection for biomarker discovery in high-dimensional OMICs data
Vicaller
12 ⭐
A software to detect virome-wide integrations
Reactomepy
11 ⭐
Explore biomolecular pathways in Reactome from the command-line or a Python script
Hlaclustrview
11 ⭐
R package specialized in HLA typing clustering and visualization based on specific similarity metrics
Seqr
11 ⭐
fast and comprehensive k-mer counting package
Scissor
57 ⭐
Scissor package
Meshclust2
11 ⭐
MeShClust2: Application of alignment-free identity scores in clustering long DNA sequences
Genegrouper
10 ⭐
CLI tool for finding gene clusters in many genomes and placing them in discrete groups based on gene content similarity.
Cloops2
11 ⭐
Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.
Stitchr
13 ⭐
Stitchr - a Python script to stitch together coding TCR nucleotide sequences from V, J, and CDR3 info
Sumstatsrehab
19 ⭐
GWAS summary statistics files QC tool
Fingernat
10 ⭐
Software for detecting non-covalent interactions formed within complexes of nucleic acids with ligands.