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Bioinformatics Tool Python Packages

Python packages with the GitHub topic bioinformatics-tool. Sorted by relevance, with stars and monthly downloads.
YaoYinYing
rosettapy

A Python utility for wrapping Rosetta command line tools.

8K 1 0
hermanzhaozzzz
bioat

bioat, a python package & command line toolkit for Bioinformatics and data science!

7K 5 0
rLannes
easyfasta

A lightweight Python library for efficient FASTA file parsing and DNA sequence manipulation.

5K 1 1
GuyTeichman
rnalysis

Analyze your RNA sequencing data without writing a single line of code

3K 141 13
epifluidlab
finaletoolkit

FinaleToolkit is a package and standalone program to extract fragmentation features of cell-free DNA from paired-end sequencing data.

3K 37 17
yutanagano
tidytcells

Standardise TR/MH/IG data

2K 12 3
dvoelkl
hide-deconv

Repository for ECCB 2026 Poster Submission. Will be made available for reviewing after submission. For earlier access contact Dennis.k.volkl@uib.no

2K 1 0
YaoYinYing
rosetta-finder

A Python utility for wrapping Rosetta command line tools.

2K 1 0
madsondeluna
ampidentifier

A Python toolkit for Antimicrobial Peptide (AMP) prediction using ensemble machine learning

2K 0 0
nyelidl
pacs-q

PaCS-Q is a Python toolkit designed to assist with Parallel Cascade Selection simulations (PaCS) for studying protein structural transitions in MD and QM/MM MD level.

1K 19 1
genotoul-bioinfo
binette

A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.

1K 49 2
lignum-vitae
biobase

A home for all biological/bioinformatics constants from protein strings to BLOSUM matrices.

1K 12 5
bobeobibo
phigaro

Phigaro is a scalable command-line tool for predicting phages and prophages

1K 52 15
xinglab-ai
genomap

Cartography of Genomic Interactions Enables Deep Analysis of Single-Cell Expression Data (Nature Communications, 2023)

955 19 5
febos
squarna

RNA secondary structure prediction tool

955 20 2
JianYang-Lab
gsmap

Integrating GWAS and spatial transcriptomics for spatially resolved mapping of cells associated with human complex traits.

902 204 16
LeonSong1995
gps-mapping

Integrating GWAS and spatial transcriptomics for spatially resolved mapping of cells associated with human complex traits.

861 204 16
JamieHeather
stitchr

Stitch together coding TCR sequences from V/J/CDR3 information

808 64 10
rodjc
nflaunch

nflaunch is a command-line tool to simplify launching Nextflow pipelines on cloud batch services (GCP Batch)

787 5 0
ShujiaHuang
geneview

Genomics data visualization in Python by using matplotlib.

745 69 9
BioGavin
wlabkit

🧬 This is a toolkit to handle bio-data from WeiBin Lab

744 9 1
chriscainx
mnnpy

Mutual nearest neighbors correction in python.

684 77 34
DEIB-GECO
gmql

Python Library for data analysis based on GMQL

606 15 5
louadi
nease

A network-based approach for exon set enrichment

591 15 2
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