Changed MSigDB Version to the latest release (v7.1).

Author: metzgerpatrick

README.md

@@ -17,7 +17,7 @@ Prior running the setup script, some components need to be installed manually:
 
 - databases
   - [hallmark gene-sets](http://software.broadinstitute.org/gsea/msigdb/)
-    - h.all.v7.0.entrez.gmt
+    - h.all.v7.1.entrez.gmt, (any other version should work as well if the filename is adjusted in [geneset_generation.R](https://github.com/AG-Boerries/MIRACUM-Pipe-docker/blob/master/databases/geneset_generation.R) in line 2
   - [condel score](https://bbglab.irbbarcelona.org/fannsdb/)
     - fannsdb.tsv.gz
     - fannsdb.tsv.gz.tbi

databases/geneset_generation.R

@@ -1,5 +1,5 @@
 library(GSA)
-gmt <- GSA.read.gmt('h.all.v7.0.entrez.gmt')
+gmt <- GSA.read.gmt('h.all.v7.1.entrez.gmt')
 genesets <- gmt$genesets
 names <- data.frame(Names = gmt$geneset.names, Descriptions = gmt$geneset.descriptions)
 names(genesets) <- names$Names