Question: Oncodriveclust R Package
0
gravatar for sana777munquad
22 months ago by
sana777munquad0 wrote:

Actually i am trying to upload cosmic file in oncodriveclust R package but am unable to upload. Anyone suggest me to how to upload the file to get the results.

cosmic file • 656 views
ADD COMMENTlink modified 21 months ago by Biostar ♦♦ 20 • written 22 months ago by sana777munquad0

Please show the commands that you are using, and also any warning or error messages that you have received.

ADD REPLYlink modified 22 months ago • written 22 months ago by Kevin Blighe67k

i am using this command

oncodriveclust -o data/output.csv -m 3 --cgc data/Brain_original.csv  examples/tcga.BRCA.nonsyn.txt examples/tcga.BRCA.syn.txt data/gene_transcripts.tsv
ADD REPLYlink modified 22 months ago by Kevin Blighe67k • written 22 months ago by sana777munquad0
1

OncodriveCLUIST has been updated with OncodriveCLUSTL

https://bitbucket.org/bbglab/oncodriveclustl

You can adapt your own input based on input in example data (paad.txt.gz)

ADD REPLYlink written 21 months ago by A3.9k

...and the warning and / or error message?; and the format of your data? By not providing as much information as possible, you are not helping your situation. Most users ignore questions that have minimal information.

ADD REPLYlink written 22 months ago by Kevin Blighe67k
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