fCCAC

The software tool "fCCAC" is an application of functional canonical correlation analysis designed for the computational evaluation of variability across DNA or RNA sequencing datasets, focusing on chromatin immunoprecipitation followed by deep sequencing (ChIP-seq). This tool is essential for assessing the reproducibility of biological or technical replicates and comparing different datasets to identify potential correlations. "fCCAC" stands out from other correlation measures, and its implementation allows for the identification of shared covariance between histone modifications and DNA binding proteins.

Topic

Sequencing;ChIP-seq

Detail

  • Operation: Sequence alignment analysis (site correlation)

  • Software interface: Command-line user interface,Library

  • Language: R

  • License: Artistic License 2.0

  • Cost: Free

  • Version name: 1.28.0

  • Credit: ERC starting grant Relieve-IMDs, the Wellcome Trust and MRC to the Wellcome Trust – Medical Research Council Cambridge Stem Cell Institute.

  • Input: -

  • Output: -

  • Contact: Pedro Madrigal pmadrigal@ebi.ac.uk

  • Collection: -

  • Maturity: Stable

Publications

  • fCCAC: functional canonical correlation analysis to evaluate covariance between nucleic acid sequencing datasets.
  • Madrigal P. fCCAC: functional canonical correlation analysis to evaluate covariance between nucleic acid sequencing datasets. fCCAC: functional canonical correlation analysis to evaluate covariance between nucleic acid sequencing datasets. 2017; 33:746-748. doi: 10.1093/bioinformatics/btw724
  • https://doi.org/10.1093/bioinformatics/btw724
  • PMID: 27993776
  • PMC: PMC5408813

Download and documentation

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