Topology based methods for functional characterization
Content for this lesson is on its way -bear with us.
GUI-based tools for GSEA
Gene set enrichment analysis
What is GSEA? Variations on GSEA An R package called rROMA identifies affected gene sets in bulk RNASeq datasets, not by looking at the ranking of the genes according to differential expression like GSEA does but by calculating Principal Components (PCs) for the gene sets and checking spread and location after projection of the genes […]
R tools for functional analysis
The biological data mining textbook is an excellent resource for functional analysis in R, both ORA and GSEA. Check out the part on enrichment analysis for details and example code. When you try multiple methods you will see that they do not always agree. Therefore it is of vital importance to use multiple methods and […]
