Bioinformatics Tool Python Packages

rosettapy

A Python utility for wrapping Rosetta command line tools.

8K 1 0

bioat

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

7K 5 0

easyfasta

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

5K 1 1

rnalysis

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

3K 141 13

finaletoolkit

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

3K 37 17

tidytcells

Standardise TR/MH/IG data

2K 12 3

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

rosetta-finder

A Python utility for wrapping Rosetta command line tools.

2K 1 0

ampidentifier

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

2K 0 0

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

binette

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

1K 49 2

biobase

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

1K 12 5

phigaro

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

1K 52 15

genomap

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

955 19 5

squarna

RNA secondary structure prediction tool

955 20 2

gsmap

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

902 204 16

gps-mapping

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

861 204 16

stitchr

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

808 64 10

nflaunch

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

787 5 0

geneview

Genomics data visualization in Python by using matplotlib.

745 69 9

wlabkit

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

744 9 1

mnnpy

Mutual nearest neighbors correction in python.

684 77 34

gmql

Python Library for data analysis based on GMQL

606 15 5

nease

A network-based approach for exon set enrichment

591 15 2