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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

For tests

  • pytest
  • pandas

Project details


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