- recipe bioconductor-enhancerhomologsearch
Identification of putative mammalian orthologs to given enhancer
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/enhancerHomologSearch.html
- License:
GPL (>= 2)
- Recipe:
Get ENCODE data of enhancer region via H3K4me1 peaks and search homolog regions for given sequences. The candidates of enhancer homolog regions can be filtered by distance to target TSS. The top candidates from human and mouse will be aligned to each other and then exported as multiple alignments with given enhancer.
- package bioconductor-enhancerhomologsearch¶
-
- Versions:
1.4.0-0
,1.0.1-0
,1.0.0-1
,1.0.0-0
- Depends:
bioconductor-biocfilecache
>=2.6.0,<2.7.0
bioconductor-biocgenerics
>=0.44.0,<0.45.0
bioconductor-biocparallel
>=1.32.0,<1.33.0
bioconductor-biostrings
>=2.66.0,<2.67.0
bioconductor-bsgenome
>=1.66.0,<1.67.0
bioconductor-genomeinfodb
>=1.34.0,<1.35.0
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-iranges
>=2.32.0,<2.33.0
bioconductor-motifmatchr
>=1.20.0,<1.21.0
bioconductor-rtracklayer
>=1.58.0,<1.59.0
bioconductor-s4vectors
>=0.36.0,<0.37.0
libblas
>=3.9.0,<4.0a0
libgcc-ng
>=12
liblapack
>=3.9.0,<4.0a0
libstdcxx-ng
>=12
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-enhancerhomologsearch
and update with:
conda update bioconductor-enhancerhomologsearch
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-enhancerhomologsearch:<tag>
(see bioconductor-enhancerhomologsearch/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-enhancerhomologsearch/README.html)