- recipe bioconductor-gothic
Binomial test for Hi-C data analysis
- Homepage:
https://bioconductor.org/packages/3.14/bioc/html/GOTHiC.html
- License:
GPL-3
- Recipe:
- Links:
biotools: gothic, doi: 10.1101/gr.185272.114
This is a Hi-C analysis package using a cumulative binomial test to detect interactions between distal genomic loci that have significantly more reads than expected by chance in Hi-C experiments. It takes mapped paired NGS reads as input and gives back the list of significant interactions for a given bin size in the genome.
- package bioconductor-gothic¶
-
- Versions:
1.30.0-0
,1.28.0-0
,1.26.0-1
,1.26.0-0
,1.24.0-0
,1.22.0-0
,1.20.6-0
,1.18.0-0
,1.16.0-0
,1.30.0-0
,1.28.0-0
,1.26.0-1
,1.26.0-0
,1.24.0-0
,1.22.0-0
,1.20.6-0
,1.18.0-0
,1.16.0-0
,1.14.0-0
,1.12.0-0
,1.10.0-0
- Depends:
bioconductor-biocgenerics
>=0.40.0,<0.41.0
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-genomicranges
>=1.46.0,<1.47.0
bioconductor-iranges
>=2.28.0,<2.29.0
bioconductor-rsamtools
>=2.10.0,<2.11.0
bioconductor-rtracklayer
>=1.54.0,<1.55.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
bioconductor-shortread
>=1.52.0,<1.53.0
r-base
>=4.1,<4.2.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-gothic
and update with:
conda update bioconductor-gothic
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-gothic:<tag>
(see bioconductor-gothic/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-gothic/README.html)