pattern-analysis 0.1.2

A package for analyzing patterns in biological data.

pattern_analysis

A package for analyzing patterns in biological data.

• Free software: MIT license

• Documentation: https://pattern-analysis.readthedocs.io.

Features

• Count patterns of nucleotide interest in a genome sequence

• Generate the complement for a genome sequence

Usage

from pattern_analysis import pattern_analysis

# Estimate the number of patterns equal to "TGATCA" in the ori sequence
ori = "ATCAATGATCAACGTAAGCTTCTAAGCATGATCAAGGTGCTCACACAGTTTATCCACAACCTGAGTGGATGACATCAAGATAGGTCGTTGTATCTCCTTCCTCTCGTACTCTCATGACCACGGAAAGATGATCAAGAGAGGATGATTTCTTGGCCATATCGCAATGAATACTTGTGACTTGTGCTTCCAATTGACATCTTCAGCGCCATATTGCGCTGGCCAAGGTGACGGAGCGGGATTACGAAAGCATGATCATGGCTGTTGTTCTGTTTATCTTGTTTTGACTGAGACTTGTTAGGATAGACGGTTTTTCATCACTGACTAGCCAAAGCCTTACTCTGCCTGACATCGACCGTAAATTGATAATGAATTTACATGCTTCCGCGACGATTTACCTCTTGATCATCGATCCGATTGAAGATCTTCAATTGTTAATTCTCTTGCCTCGACTCATAGCCATGATGAGCTCTTGATCATGTTTCCTTAACCCTCTATTTTTTACGGAAGAATGATCAAGCTGCTGCTCTTGATCATCGTTTC"

pat = "TGATCA"
res = pattern_analysis.pattern_count(ori, pat)

print("A total of {} {} are found.".format(res, pat)) # Return "A total of 8 TGATCA are found."

Credits

This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.

History

0.1.1 (2023-12-17)

• Restructure the pattern analysis package using cookiecutter-pypackage.

0.1.0 (2023-12-12)

• First release on PyPI.