6279...@qq.com
Hi there!
I've been trying to run MutSigCV on the Broad Institute GenePattern
server and I get this error "Error using gp_MutSigCV>MutSig_preprocess (line 314)
No mutations left!
Error in gp_MutSigCV (line 184)
"
Turn to error text, it seems that no mutation could be mapped to mutation dictionary :
MutSigCV: PREPROCESS
--------------------
Loading mutation_file...
Loading coverage file...
Processing mutation "effect"...
WARNING: 3481/3481 mutations could not be mapped to effect using mutation_type_dictionary_file:
"Nonstop_Mutation": [3]
"In_Frame_Ins": [6]
"In_Frame_Del": [20]
"Splice_Site": [75]
"Frame_Shift_Ins": [78]
"Frame_Del": [205]
"Nonsense_Mutation": [250]
"Missense_Mutation": [2844]
----TOTAL: [3481]
They will be removed from the analysis.
However, I can see the mapping relationship in the dictionary like Missense_Mutation can map to a nonsilent.
What exactly is going on here and how do I fix the error?
Btw, my job ID is 1730394
