rGREAT issues

different enrichment results between rGREAT and the web-based tool

1

Hi, I input the 16155 region into the rGREAT package and web-based tool with same parameters. job

getRegionGeneAssociations function not called

I am using rGREAT_2.1.11 and the function getRegionGeneAssociations is not able to be called and does not appear to be included in the package. Is there another way in which...

adamxmiranda

[question] how can i convert the shinyReport to local html file or pdf

1

champeil

gene_sets

I am comparing enrichment for several different groups. I would like to obtain the list of genes found in each GO term, however when I check greatJob@gene_sets I get the...

alkurowska

by default support KEGG gene sets

https://rest.kegg.jp/list/hsa lists coordinates of genes.

jokergoo

Cannot download enrichment tables with associated genes with version 3

1

Hi, I keep getting this error when I try to fetch tables using the `download_by = 'tsv'` argument after submitting a job using version 3. This is what I put...

coolleen516

rGREAT Service Unavailable: Operation timed out

3

Hello, I'm running into a service unavailable error when trying to run rGREAT. The site appears to be down too: http://great.stanford.edu/ Please let me know if I can provide any...

apblair

Adjust pbinom arguments

closes #49 P values reported by `getEnrichmentTable` drop to 0 above a P-value of ~ 1e-14. These changes adjust the calculation to use the log.p argument in `pbinom` / `phyper`...

andvon