HiCblock: Systematic Analysis of Architectural Proteins and Functional Elements in Blocking Long-Range Contacts Between Loci

Here we propose a model to systematically analyze the roles of architectural proteins and functional elements in blocking long-range contacts between loci. The proposed model does not rely on topologically associating domain (TAD) mapping from Hi-C data. Instead of testing the enrichment or influence of protein binding at TAD borders, the model directly estimates the blocking effect of proteins on long-range contacts between flanking loci, making the model intuitive and biologically meaningful.

Version: 1.0
Depends: R (≥ 3.4.0)
Imports: IRanges, GenomeInfoDb, methods, GenomicRanges, Matrix, glmnet, rtracklayer, HiTC, MASS, S4Vectors
Published: 2017-06-07
Author: Raphael Mourad
Maintainer: Raphael Mourad <raphael.mourad at ibcg.biotoul.fr>
License: GPL-2
NeedsCompilation: no
CRAN checks: HiCblock results

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Reference manual: HiCblock.pdf
Package source: HiCblock_1.0.tar.gz
Windows binaries: r-devel: HiCblock_1.0.zip, r-release: HiCblock_1.0.zip, r-oldrel: not available
OS X El Capitan binaries: r-release: not available
OS X Mavericks binaries: r-oldrel: not available

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