Hi! I'm currently trying to use HoneyBADGER but run into an error when executing hb$plotGexpProfile()
.
mart.obj <- useMart(biomart="ENSEMBL_MART_ENSEMBL", dataset='mmusculus_gene_ensembl', host='jul2015.archive.ensembl.org')
hb <- new('HoneyBADGER', name='project')
hb$setGexpMats(matrix.sample, matrix.ref, mart.obj, filter=FALSE, scale=FALSE, verbose=TRUE)
# Initializing expression matrices ...
# Normalizing gene expression for 36544 genes and 2551 cells ...
# Done setting initial expression matrices!
hb$plotGexpProfile()
# Error in apply(d, 2, caTools::runmean, k = window.size, align = "center") :
# dim(X) must have a positive length
Do you have an idea what the problem could be? I would greatly appreciate your help.