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).
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-edaseq
and update with:
conda update bioconductor-edaseq
A Docker container is available at https://quay.io/repository/biocontainers/bioconductor-edaseq.