- recipe bioconductor-prebs
Probe region expression estimation for RNA-seq data for improved microarray comparability
- Homepage
- License
Artistic-2.0
- Recipe
- Links
biotools: prebs
The prebs package aims at making RNA-sequencing (RNA-seq) data more comparable to microarray data. The comparability is achieved by summarizing sequencing-based expressions of probe regions using a modified version of RMA algorithm. The pipeline takes mapped reads in BAM format as an input and produces either gene expressions or original microarray probe set expressions as an output.
- package bioconductor-prebs¶
-
- Versions
1.34.0-0
,1.32.0-0
,1.30.0-1
,1.30.0-0
,1.28.0-0
,1.26.0-0
,1.24.0-1
,1.22.0-0
,1.20.0-0
,1.34.0-0
,1.32.0-0
,1.30.0-1
,1.30.0-0
,1.28.0-0
,1.26.0-0
,1.24.0-1
,1.22.0-0
,1.20.0-0
,1.18.0-0
- Depends
bioconductor-affy
>=1.72.0,<1.73.0
bioconductor-biobase
>=2.54.0,<2.55.0
bioconductor-genomeinfodb
>=1.30.0,<1.31.0
bioconductor-genomicalignments
>=1.30.0,<1.31.0
bioconductor-genomicranges
>=1.46.0,<1.47.0
bioconductor-iranges
>=2.28.0,<2.29.0
bioconductor-rpa
>=1.50.0,<1.51.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
r-base
>=4.1,<4.2.0a0
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-prebs
and update with:
conda update bioconductor-prebs
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-prebs:<tag>
(see bioconductor-prebs/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-prebs/README.html)