Fasta Python Packages

pyfaidx

Efficient pythonic random access to fasta subsequences

pyfastx

a python package for fast random access to sequences from plain and gzipped FASTA/Q files

jupyterlab-mathjax3

Renderers and renderer extensions for JupyterLab

pydna

Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.

fuc

Frequently used commands in bioinformatics

jupyterlab-geojson

Renderers and renderer extensions for JupyterLab

jupyterlab-fasta

Renderers and renderer extensions for JupyterLab

filterx

process any file in tabular format. Fasta/fastq/GTF/GFF/VCF/SAM/BED

storf-reporter

Package to extract Unannotated Regions from prokaryotic genomes report coding and pseudogenised genes delimited by stop codons - Named StORFs (Stop - Open Reading Frames)

demultiplex

Versatile FASTA/FASTQ demultiplexer.

jupyterlab-vega3

Renderers and renderer extensions for JupyterLab

easyfasta

A lightweight functional Python library for efficient FASTA file parsing and DNA sequence manipulation. No OOP bloat, data only data.

jupyterlab-katex

Renderers and renderer extensions for JupyterLab

biobase

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

jupyterlab-mathjax2

A MathJax Typesetting provider for JupyterLab 4 and above

fastaparser

A Python FASTA file Parser and Writer.

minifasta

An small FASTA toolbox for small to medium size projects without dependencies.

fastaframes

Convert between UniProt FASTA files and pandas DataFrames.

chromdetect

Detect chromosome-level scaffolds in genome assemblies with inconsistent naming conventions

bioquik

Fast FM-index toolkit for CG-anchored DNA motif counting in FASTA files with parallel processing and optional visualization.

biolic

Placeholder for biolic, a fast streaming bioinformatics toolkit. Python bindings are planned; the tool currently ships as a Rust CLI.

protgraph

ProtGraph - A Graph-Generator for Proteins

dnadesign

Python bindings for dnadesign

fundedness

Python financial planning toolkit with CEFR fundedness, Monte Carlo retirement sims, withdrawal strategy comparisons, and interactive Plotly visuals (Streamlit + FastAPI).