- recipe bioconductor-derfinder
Annotation-agnostic differential expression analysis of RNA-seq data at base-pair resolution via the DER Finder approach
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/derfinder.html
- License:
Artistic-2.0
- Recipe:
- Links:
biotools: derfinder
This package provides functions for annotation-agnostic differential expression analysis of RNA-seq data. Two implementations of the DER Finder approach are included in this package (1) single base-level F-statistics and (2) DER identification at the expressed regions-level. The DER Finder approach can also be used to identify differentially bounded ChIP-seq peaks.
- package bioconductor-derfinder¶
-
- Versions:
1.32.0-0
,1.28.0-0
,1.26.0-0
,1.24.2-0
,1.24.0-0
,1.22.0-0
,1.20.0-0
,1.18.3-0
,1.16.1-0
,1.32.0-0
,1.28.0-0
,1.26.0-0
,1.24.2-0
,1.24.0-0
,1.22.0-0
,1.20.0-0
,1.18.3-0
,1.16.1-0
,1.14.0-0
,1.12.0-0
- Depends:
bioconductor-annotationdbi
>=1.60.0,<1.61.0
bioconductor-biocgenerics
>=0.44.0,<0.45.0
bioconductor-biocparallel
>=1.32.0,<1.33.0
bioconductor-bumphunter
>=1.40.0,<1.41.0
bioconductor-derfinderhelper
>=1.32.0,<1.33.0
bioconductor-genomeinfodb
>=1.34.0,<1.35.0
bioconductor-genomicalignments
>=1.34.0,<1.35.0
bioconductor-genomicfeatures
>=1.50.0,<1.51.0
bioconductor-genomicfiles
>=1.34.0,<1.35.0
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-iranges
>=2.32.0,<2.33.0
bioconductor-qvalue
>=2.30.0,<2.31.0
bioconductor-rsamtools
>=2.14.0,<2.15.0
bioconductor-rtracklayer
>=1.58.0,<1.59.0
bioconductor-s4vectors
>=0.36.0,<0.37.0
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-derfinder
and update with:
conda update bioconductor-derfinder
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-derfinder:<tag>
(see bioconductor-derfinder/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-derfinder/README.html)