Biological Data Analysis Python Packages

protpy

Calculating a range of protein descriptors using their physicochemical, biological and structural properties 🔬.

squarna

RNA secondary structure prediction tool

py3plex

Py3plex - A multilayer complex network visualization and analysis library in python3

aop2db

AOP2DB - Python parser for converting importing adverse outcome pathway data into a relational database.

lam

LAM is a quantitative phenotyping tool intended for regionally defined analysis of Drosophila midguts based on objects detected from microscopy images.

phigaro

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

deepcell-spots

Deep Learning Library for Spot Detection

plugy

Flexible processing and analysis of plug microfluidics data

mnnpy

Mutual nearest neighbors correction in python.

devolearn

Accelerate data driven research on embryos with deep learning models :microscope:

bioviper

Enhancements to Biopython for working with biological data

fuse-toolkit

FUSE toolkit supports fluorescent cell image alignment and analysis.

pylattice

A python library for advanced lattice light-sheet image analysis

memocell

Bayesian inference of stochastic cellular processes with and without memory in Python.

artem-rna

Aligning RNA TErtiary Motifs (ARTEM) is a tool for superimposing arbitrary RNA spatial structures

med-signal

A python package designed to simulate and analize EEG signals to determine relevant data and study cases.

pycellid

Functions to analyze Cell-ID single-cell cytometry data using python language.

pepnet

Neural networks for amino acid sequences