Sequence Python Packages

pygrinder

PyGrinder: a Python toolkit for grinding data beans into the incomplete for real-world data simulation by introducing missing values with different missingness patterns, including MCAR (complete at random), MAR (at random), MNAR (not at random), sub sequence missing, and block missing

pyfastx

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

sequenzo

A fast, scalable, and intuitive Python package in sequence analysis.

seqtree

Efficiently search and cluster highly similar short sequences

mdiff

Package for finding difference between two input sequences with ability to detect sequence elements displacements.

django-generate-series

Use Postgres' generate_series to create sequences with Django's ORM

fastatacular

Pure-Python library for reading and writing FASTA sequence files with UniProt-style header parsing.

seqlike

Unified biological sequence manipulation in Python

orange3-timeseries

🍊 :chart_with_upwards_trend: Orange add-on for analyzing, visualizing, manipulating, and forecasting time series data.

mrsd

A toolkit to generate MR sequence diagrams

cstag

Python module to manipulate and visualize minimap2's cs tag

pypynum

PyPyNum is a versatile Python math lib. It features modules for math, data analysis, arrays, crypto, physics, RNG, data proc, stats, eq solving, image proc, interp, matrix calc, and high-prec math. Designed for scientific computing, data science, and ML, it offers efficient, general-purpose tools.

camina

Flexible, lightweight tools for modifying and converting

mutalyzer-algebra

A Boolean Algebra for Genetic Variants

bioconvert

Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.

bluewhale3-timeseries

🍊 :chart_with_upwards_trend: Orange add-on for analyzing, visualizing, manipulating, and forecasting time series data.

quicked

QuickEd is a high-performance exact sequence alignment based on the bound-and-align paradigm.

numpypy

PyPyNum is a versatile Python math lib. It features modules for math, data analysis, arrays, crypto, physics, RNG, data proc, stats, eq solving, image proc, interp, matrix calc, and high-prec math. Designed for scientific computing, data science, and ML, it offers efficient, general-purpose tools.

pycorruptor

PyGrinder: a Python toolkit for grinding data beans into the incomplete for real-world data simulation by introducing missing values with different missingness patterns, including MCAR (complete at random), MAR (at random), MNAR (not at random), sub sequence missing, and block missing

seqcore

High-performance biological sequence analysis library for Python. A unified, GPU-accelerated library for genomics, proteomics, structural biology, and drug design.

smof

Explore and analyze biological sequence data

circuitpython-ansi-escape-code

simple helper library for common ANSI escape codes

seq-json-schema

Standardized JSON Schema for authoring multi-mission sequences.

evoseq

Genome analysis toolkit powered by Evo foundation models.