Databank operations of the Imagen project

Databank operations are mostly documented internally at NeuroSpin.

Basic information is available from the project wiki.

This Python package combines a Python library imagen_databank for basic sanity check and preprocessing of Imagen data and a set of scripts to extract, check, anonymize and transform raw Imagen data.

imagen_databank

Read and perform sanity checks on raw datasets.

cantab

Extract age from FU2 Cantab data.

dawba

Remove identifying data and convert PSC1 to PSC2 in Dawba data, after manual download from the youthinmind server.

stratify_demographics

Cross-check Stratify age and sex with stratify_debug_psytools.py. Print demographics with demographics.py, using recruitment files and validated age/sex from the output of teh previosu script.

geolocation

Merge and convert geolocation data from PSC1 to PSC2.

mri

De-identify some NIfTI files that used to contain the PSC1 code.

onsets

Remove identifying data and convert PSC1 to PSC2 in FU3 onsets files.

psc

Update FU3 Dawba codes from token tables maintained on the Delosis serevr.

psytools

Download Psytools data as CSV files from the Delosis server. Remove identifying data and convert PSC1 to PSC2.

sex

Derive reference sex of Imagen subjects from multiple sources. There had been errors at baseline.