recipe bioconductor-edaseq

Exploratory Data Analysis and Normalization for RNA-Seq

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/EDASeq.html

License:

Artistic-2.0

Recipe:

/bioconductor-edaseq/meta.yaml

Links:

biotools: edaseq

Numerical and graphical summaries of RNA-Seq read data. Within-lane normalization procedures to adjust for GC-content effect (or other gene-level effects) on read counts: loess robust local regression, global-scaling, and full-quantile normalization (Risso et al., 2011). Between-lane normalization procedures to adjust for distributional differences between lanes (e.g., sequencing depth): global-scaling and full-quantile normalization (Bullard et al., 2010).

package bioconductor-edaseq

Versions:

2.32.0-0,  2.28.0-0,  2.26.0-0,  2.24.0-1,  2.24.0-0,  2.22.0-0,  2.20.0-0,  2.18.0-1,  2.16.0-0, 

2.32.0-0,  2.28.0-0,  2.26.0-0,  2.24.0-1,  2.24.0-0,  2.22.0-0,  2.20.0-0,  2.18.0-1,  2.16.0-0,  2.14.1-0,  2.12.0-0,  2.10.0-0,  2.8.0-0

Depends:

• bioconductor-annotationdbi >=1.60.0,<1.61.0

• bioconductor-aroma.light >=3.28.0,<3.29.0

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biomart >=2.54.0,<2.55.0

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-genomicfeatures >=1.50.0,<1.51.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-shortread >=1.56.0,<1.57.0

• r-base >=4.2,<4.3.0a0

• r-biocmanager

Required By:

• bioconductor-octad

• bioconductor-damirseq

• bioconductor-consensusde

• bioconductor-ruvseq

• bioconductor-metaseqr2

• bioconductor-ribosomeprofilingqc

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-edaseq

and update with:

conda update bioconductor-edaseq

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-edaseq:<tag>

(see bioconductor-edaseq/tags for valid values for <tag>)

Download stats

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