I'm attempting to run some gene ontology analysis as well as pathway analysis using the Reactome database, but i'm running into something interesting.

I'm not returning any results. So whenever I go to visualize my data using a dotplot, it returns an empty image. What am I doing wrong?

File is a 6 column typical bed format. Data is in hg19.

data <- readPeakFile($bed)

gene <- seq2gene(data, tssRegion = c(-1000,1000), flankDistance = 3000, TxDb = txdb)

reactome <- enrichPathway(gene)

head(gene, 2)

[1] ID   Description   GeneRatio   BgRatio   pvalue   p.adjust   qvalue   geneID

[9] Count

<0 rows> (or 0-length row.names)

Is this potentially just a result of not having any enriched Pathways? I get a similar problem when I try to use `enrichGO`.

Thank you.