- recipe bioconductor-hicdcplus
Hi-C Direct Caller Plus
- Homepage:
https://bioconductor.org/packages/3.14/bioc/html/HiCDCPlus.html
- License:
GPL-3
- Recipe:
Systematic 3D interaction calls and differential analysis for Hi-C and HiChIP. The HiC-DC+ (Hi-C/HiChIP direct caller plus) package enables principled statistical analysis of Hi-C and HiChIP data sets – including calling significant interactions within a single experiment and performing differential analysis between conditions given replicate experiments – to facilitate global integrative studies. HiC-DC+ estimates significant interactions in a Hi-C or HiChIP experiment directly from the raw contact matrix for each chromosome up to a specified genomic distance, binned by uniform genomic intervals or restriction enzyme fragments, by training a background model to account for random polymer ligation and systematic sources of read count variation.
- package bioconductor-hicdcplus¶
-
- Versions:
1.2.1-0
,1.2.0-0
,1.0.0-0
- Depends:
bioconductor-biostrings
>=2.62.0,<2.63.0
bioconductor-bsgenome
>=1.62.0,<1.63.0
bioconductor-genomeinfodb
>=1.30.0,<1.31.0
bioconductor-genomicinteractions
>=1.28.0,<1.29.0
bioconductor-genomicranges
>=1.46.0,<1.47.0
bioconductor-interactionset
>=1.22.0,<1.23.0
bioconductor-iranges
>=2.28.0,<2.29.0
bioconductor-rtracklayer
>=1.54.0,<1.55.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
libblas
>=3.8.0,<4.0a0
libgcc-ng
>=10.3.0
liblapack
>=3.8.0,<4.0a0
libstdcxx-ng
>=10.3.0
r-base
>=4.1,<4.2.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-hicdcplus
and update with:
conda update bioconductor-hicdcplus
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-hicdcplus:<tag>
(see bioconductor-hicdcplus/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-hicdcplus/README.html)