diffReps protocols

diffReps specifications

Information


Unique identifier OMICS_00472
Name diffReps
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Programming languages Perl
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.55.6
Stability Stable
Requirements CPAN modules: Statistics::TTest, Math::CDF, Parallel::ForkManager
Maintained Yes

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Documentation


Maintainer


  • person_outline Li Shen <>

Additional information


https://github.com/shenlab-sinai/diffreps/wiki

Publication for diffReps

diffReps IN pipelines

 (2)
2017
PMCID: 5501531
PMID: 28683804
DOI: 10.1186/s13059-017-1261-8

[…] cascades and responses to hormone stimuli, both in control conditions and after flg22 treatment (additional file 1: figure s24f)., we next compared the two chip-seq datasets using seqminer and diffreps, which allows qualitative and quantitative comparisons to be made between a reference set of genomic positions and multiple chip-seq datasets [17]. using this approach, we observed three […]

2016
PMCID: 5142015
PMID: 26764273
DOI: 10.1093/bib/bbv110

[…] the tools we have included in this study have been specifically designed for either of these data sets; multigps, for example, is specifically designed for transcription factors, while tools such as diffreps or rseg have been developed to detect differential histone modifications and indeed show poor performances on the transcription factor data set. hence, these tools cannot be used […]

diffReps institution(s)
Fishberg Department of Neuroscience and Friedman Brain Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA
diffReps funding source(s)
Supported by the seed grant from Friedman Brain Institute, National Institutes of Health (NIH) grants P01 DA008227 and P50 MH096890.

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