broadinstitute / ssGSEA2.0

Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)

Other

230 stars 79 forks source link

Errors about ssGSEA #7

Closed realdwang closed 4 years ago

realdwang commented 5 years ago

when i run "source("ssgsea-gui.R")" and I want to use ssgsea. There is an error: argument "fname" is missing, with no default

my gmt file looks like this: S1 No_Data_No_Data AIF1 ALDH2 AMPD3 ANKRD20A12P APOL1 APOL6 my gct file looks like this:

1.3

21655 56 0 0 NAME S1 S2 S3 A1BG xxx xxx xxx

So what is the problem?

karstenkrug commented 5 years ago

Could you please try to use the GenePattern module and let me know whether you get the same error there? You have to register to use GenePattern but it's free: https://tinyurl.com/PTM-SEA-GP