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CisFinder

A tool for finding over-representing short DNA motifs (e.g., transcription factor binding motifs) and estimates the Position Frequency Matrix (PFM) directly from word counts. It is designed for the analysis of ChIP-chip and ChIP-seq data and can process long input files (50 Mb).

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CisFinder forum

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CisFinder classification

CisFinder specifications

Software type:
Package/Module
Restrictions to use:
None
Computer skills:
Advanced
Maintained:
Yes
Interface:
Command line interface
Operating system:
Unix/Linux
Stability:
Stable

CisFinder distribution

versioning

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CisFinder forum

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No open topic.

CisFinder classification

CisFinder specifications

Interface:
Web user interface
Computer skills:
Basic
Maintained:
Yes
Restrictions to use:
None
Stability:
Stable

CisFinder support

Maintainer

  • Alexei Sharov <>
  • Alexei Sharov <>

Credits

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Publications

Institution(s)

Developmental Genomics and Aging Section, Laboratory of Genetics, National Institute on Aging, NIH, Baltimore, MD, USA

Link to literature

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