Set up terra workspaces for the complete end-to-end evaluation of each cohort - Githubissues

broadinstitute / GATK-gCNV-publication

Supporting code and materials for GATK gCNV publication

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Set up terra workspaces for the complete end-to-end evaluation of each cohort #7

Open asmirnov239 opened 4 years ago

asmirnov239 commented 4 years ago

We need to set up two workspace for analyzing 1000 Genomes and SFARI - they will mirror each other in terms of data models and methods.

In particular, for each workspace we need to do following:

Choose samples and cohort/case sample division; create the data model
Set up gCNV cohort/case methods; import good hyperparameter values (or find them using cross validation) from previous runs and upload corresponding jsons
Finally add the validation script and run all samples through each tool and validation

samuelklee commented 4 years ago

@asmirnov239 if the workspaces are created, can you share them and document here?