RNAseq Utils

RNAseq Utils

Scripts for manipulating functional enrichments, DEGs list and to visualize RNAseq data. If you use these scripts please cite this paper: https://onlinelibrary.wiley.com/doi/full/10.1111/tpj.15578

add_genes2GO

Add DEGs IDs to GOseq enrichment output. DEGs ID colnames must be "id"

add_genes2GO(enrichment_table, gene2cat, DE_genes, sep)

GOCircleR

A modified version of GOCircle function from GOPlot package (http://cran.r-project.org/web/packages/GOplot). It allows to truncate labels at a given string length (trunc.width argument) and to wrap them in rows of given length (lab.wrap argument).

GOCircleR(data, title, nsub, rad1, rad2, table.legend = T, zsc.col, lfc.col, label.size, label.fontface, lab.wrap, trunc.width)

deseq2david and goseq2david

Convert DEseq2/goseq results output into DAVID format for GOPlot compatibility.