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.

mdiff

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

seqtree

Efficient search for highly similar short sequences

django-generate-series

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

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.

orange3-timeseries

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

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.

seqlike

Unified biological sequence manipulation in Python

cstag

Python module to manipulate and visualize minimap2's cs tag

evoseq

Genome analysis toolkit powered by Evo foundation models.

bioconvert

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

ring-seq-py

A Pythonic class for sequences considered circular

a-pandas-ex-sequence-search

Sequence / string search with NumPy in pandas DataFrames

camina

Flexible, lightweight, extensible, easy-to-use data structures for Python

bluewhale3-timeseries

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

npsearchsequence

Sequence / string search with NumPy

quicked

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

mutalyzer-algebra

A Boolean Algebra for Genetic Variants

hmm-classifier

No description available

pycorruptor

A Python Toolbox for Data Corruption

smof

Explore and analyze biological sequence data

circuitpython-ansi-escape-code

simple helper library for common ANSI escape codes