dge_workflow: expression_explorer app failed to load due to renamed/additional annotation columns
Issues:
- at least for the igenome
Homo_sapiens/Ensembl_v99
(others were not tested) runningfeatcounts_deseq_mf.R
with the--gtf
flag results in empty gene descriptions which have to be manually added; however, adding the information from biomaRt ensembl results in the column 'description' instead of 'gene_description' if not manually changed and this leads to issues with theexpression_explorer
app which assumes the 'gene_description' but not the 'description' column - annotation columns (e.g. domain prediction) which are additionally added to the dge results are not taken into account when the columns for further data summarization are selected in the
gather
functions