Provides functions to search for any di-nucleotidic Position Weight Matrix (di-PWM) in a genomic sequence (IUPAC compliant).
Project description
Package dipwmsearch
Description
This package provides efficient functions to search for one kind of probabilistic motifs known as di-nucleotidic Position Weight Matrices (di-PWMs) in a genomic sequence. The genomic sequence may contain positions with non-ATGC symbols, encoded with IUPAC.
Documentation
A full documentation details how to install and use the package, and also provides ready-to-use scripts for searching a motif in FASTA sequence.
Please refer to: https://rivals.lirmm.net/dipwmsearch/
Contact: dipwm@lirmm.fr
License
License type: CeCILL-B
Authors
- Marie Mille (main contributor)
- Bastien Cazaux
- Julie Ripoll
- Eric Rivals
Dependencies
Basics to install
pyahocorasickdocumentation
For tests
pytestpandas
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