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bbglab / intogen-plus

a framework for automatic and comprehensive knowledge extraction based on mutational data from sequenced tumor samples from patients.
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IntOGen plus | Update CGC dataset version #7

Closed FedericaBrando closed 7 months ago

FedericaBrando commented 1 year ago

Since CGC released a new version of CGC in may 23rd of this year has led to stop support for v95 of CGC dataset.

now the available programmatical download are the following: 

❯ curl https://cancer.sanger.ac.uk/cosmic/file_download/GRCh38/cosmic
["GRCh38/cosmic/v96","GRCh38/cosmic/v97","GRCh38/cosmic/v98","latest"]%

We need to decide at what version of CGC dataset move.

FedericaBrando commented 1 year ago
FedericaBrando commented 7 months ago

The test run resulted of 5 new genes detected as drivers with no lost genes.The new drivers are new in the CGC new version so it is expected.

We can proceed with the whole run!