We are eager to hear your success stories or challenges using MAGI.
Please feel free to post to our Google Group
or contact Max Leiserson
Generating files for upload
We understand that it can be a challenge to generate data in the proper format for upload to MAGI.
We provide a script that will convert data in TCGA MAF format
into the SNV TSV format used by MAGI
, and a script that will convert data in GISTIC2 format
into the TSV format used by MAGI. If you develop your own script(s) to generate TSV data for MAGI
that you don't mind sharing, please feel free to contact us
and we'll be happy to post it here for anyone to use.
MAF ParserScript: mafToTSV.pyRequired files:
The MAF parser requires one of the following files that maps transcripts to their lengths.
GISTIC2 ParserScript: gistic2tsv.pyRequired files:
The GISTIC2 parser requires a JSON file that maps genes to their genome locations: