- fastp
- fastqc
- hisat2 | rna-star
- libjs-jquery-datatables
- libjs-jquery-tablesorter
- megadepth
- multiqc
- python3:any
- python3-deeptools
- python3-htseq
- r-bioc-deseq2
- r-bioc-rtracklayer
- r-bioc-summarizedexperiment
- r-bioc-tximport
- r-cran-corrplot
- r-cran-crosstalk
- r-cran-data.table
- r-cran-dt (>= 0.15+dfsg-2)
- r-cran-ggplot2
- r-cran-ggpubr
- r-cran-ggrepel
- r-cran-gprofiler2
- r-cran-pheatmap
- r-cran-plotly
- r-cran-reshape2
- r-cran-rjson
- r-cran-rlang
- r-cran-rmarkdown
- r-cran-scales
- salmon
- samtools
- snakemake
- trim-galore