DOI: 10.18129/B9.bioc.diffloop    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.15 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see diffloop.

Identifying differential DNA loops from chromatin topology data

Bioconductor version: 3.15

A suite of tools for subsetting, visualizing, annotating, and statistically analyzing the results of one or more ChIA-PET experiments or other assays that infer chromatin loops.

Author: Caleb Lareau [aut, cre], Martin Aryee [aut]

Maintainer: Caleb Lareau <caleblareau at g.harvard.edu>

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biocViews DataImport, DataRepresentation, GO, Preprocessing, QualityControl, Software, Visualization
Version 1.24.0
In Bioconductor since BioC 3.3 (R-3.3) (6.5 years)
License MIT + file LICENSE
Depends R (>= 3.5.0)
Imports methods, GenomicRanges, foreach, plyr, dplyr, reshape2, ggplot2, matrixStats, Sushi, edgeR, locfit, statmod, biomaRt, GenomeInfoDb, S4Vectors, IRanges, grDevices, graphics, stats, utils, Biobase, readr, data.table, rtracklayer, pbapply, limma
Suggests DESeq2, diffloopdata, ggrepel, knitr, rmarkdown, testthat
URL https://github.com/aryeelab/diffloop
BugReports https://github.com/aryeelab/diffloop/issues
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Source Package diffloop_1.24.0.tar.gz
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