Bioinformatics Analysis Python Packages

bystro

Natural Language Search and Analysis of High Dimensional Genomic Data

3K 49 6

sjcab-peak2anno-db

Gene-backed peak-to-annotation BED resources for SJ/CAB workflows.

2K 0 0

rnalysis

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

2K 139 22

flowpaths

A Python package to quickly decompose weighted graphs (acyclic or not) into weighted paths or walks, under various models.

1K 14 6

pyrsx

Rust RAD-seq marker analysis

1K 4 0

pybio

pybio is a comprehensive Python framework designed to streamline genomics operations. It offers a direct interface to Ensembl genome assemblies and annotations, while also accommodating custom genomes via FASTA/GTF inputs.

803 15 2

buisciii-tools

set of helper tools for bu-isciii management of its core services portfolio.

594 4 19

phigaro

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

550 53 15

splicekit

splicekit: an integrative toolkit for splicing analysis from short-read RNA-seq

349 23 4

codonu

A python project for analysis of codon usage for gene or genome analysis

324 28 1

dohlee

:package: My personal python utility library.

317 1 0

bidali

Biological Data Analysis Library

236 0 1

gmql

Python Library for data analysis based on GMQL

181 15 5

ciara-python

Implementation of entropy of mixing algorithm in python

176 10 1

pbxplore

A suite of tools to explore protein structures with Protein Blocks :snake:

175 30 15

kvasirhgt

Searching for Horizontal Gene Transfer

144 10 5

pyrpipe

Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.

140 85 29

chronqc

Manuscript describing ChronQC is now available online in Bioinformatics

123 18 10

pistis

Quality control plotting for long reads

110 10 1

neticspy

Python implementation of NetICS (Network-based Integration of Multi-omics data).

107 1 1

tcga-gdc-downloader

Download and annotate TCGA RNA-seq counts from the GDC portal

100 8 0

pyrice

PyRice is an API to access some Rice public databases at the same time with consistent output. PyRice design is modular and implements a smart query system which fits the computing resources to optimize the query speed.

94 13 2

proteoannot

Standalone Python package for annotating protein sequences with biological and physicochemical properties (iFeature, IEDB, SignalP) for reverse vaccinology. Extracted from VacSol-ML(ESKAPE); supports multi-allele MHC-I/II epitope prediction. Provides both a Python API and a CLI

69 0 0

unifunc

Tool for similarity analysis of protein function annotations.

67 8 0