- recipe bioconductor-ripat
Retroviral Integration Pattern Analysis Tool (RIPAT)
- Homepage:
- License:
Artistic-2.0
- Recipe:
RIPAT is developed as an R package for retroviral integration sites annotation and distribution analysis. RIPAT needs local alignment results from BLAST and BLAT. Specific input format is depicted in RIPAT manual. RIPAT provides RV integration pattern analysis result as forms of R objects, excel file with multiple sheets and plots.
- package bioconductor-ripat¶
-
- Versions:
1.8.0-0
,1.4.0-0
,1.2.0-0
,1.0.0-2
,1.0.0-1
- Depends:
bioconductor-biomart
>=2.54.0,<2.55.0
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-iranges
>=2.32.0,<2.33.0
bioconductor-karyoploter
>=1.24.0,<1.25.0
bioconductor-regioner
>=1.30.0,<1.31.0
bioconductor-rtracklayer
>=1.58.0,<1.59.0
r-base
>=4.2,<4.3.0a0
r-ggplot2
>=3.1.0
r-openxlsx
>=4.1.4
r-plyr
>=1.8.4
r-stringr
>=1.3.1
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-ripat
and update with:
conda update bioconductor-ripat
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-ripat:<tag>
(see bioconductor-ripat/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-ripat/README.html)