R3CPET specifications

Information


Unique identifier OMICS_10986
Name R3CPET
Software type Package/Module
Interface Command line interface, Graphical user interface
Restrictions to use None
Input data ChIA-PET, PPI, ChIP-seq
Output data Co-factor complex
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, R
Parallelization MPI
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.12.0
Stability Stable
Requirements
AnnotationDbi, methods, parallel, BiocGenerics, S4Vectors, GenomeInfoDb, BiocStyle, ggplot2, biomaRt, ChIPpeakAnno, data.table, knitr, IRanges(>=2.13.12), reshape2, org.Hs.eg.db, clValid, R(>=3.2), GenomicRanges(>=1.31.8), TxDb.Hsapiens.UCSC.hg19.knownGene, Hmisc, RCurl, biovizBase, pheatmap, igraph, shiny, ggbio, Rcpp(>=0.10.4), clues
Maintained Yes

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Publication for R3CPET

R3CPET institution(s)
MOE Key Laboratory of Bioinformatics; Bioinformatics Division and Center for Synthetic & Systems Biology, TNLIST; Department of Automation, Tsinghua University, Beijing, China; Department of Molecular and Cell Biology, Center for Systems Biology, University of Texas, Dallas, Richardson, TX, USA
R3CPET funding source(s)
This work is supported by the National Basic Research Program of China (2012CB316503), the National High Technology Research and Development Program of China (2012AA020401), the National Nature Science Foundation of China (91019016, 31361163004, and 31301044), and Tsinghua National Laboratory for Information Science and Technology Cross-discipline Foundation.

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