Week 34

04/10/23 - 04/14/23

Done and To Do

  • Presented in lab meeting, presentation here
  • Interviewed more RAs to work on the NLP + HBN project
    • Hoping to have someone take over this project during the summer
  • Updated dataset info for ABCD, healthy brains and uk biobank datasets
    • trying to keep track of which data are where, would be great to have this as part of a lab wiki that people update frequently
  • A subset of fMRIPrep + XCP derivatives for HBN are now on OpenMind at /nese/mit/group/sig/projects/hbn/hbn_bids/derivatives (thanks to Steven Meisler)
  • Working with Steven to process the entire HBN dataset (fmriprep + xcp pipeline)
  • Updated phenotypic data for ABCD, currently at /om2/user/maedbh/abcd_data/ABCD4 (will move to nese at some point)
  • UKBiobank phenotypic data have also been updated at /om2/user/maedbh/ukbiobank_data (will move to nese at some point)
  • Having lots of difficulty running HBN models on OpenMind this week - don’t think it’s an issue with the nodes rather something to do with pydra-ml, scripts are running but hanging on the gen_workflow function (no idea why) - have spent lots of time troubleshooting
    • shreya is having similar difficulty with the developer distrubtion of pydra-ml in trying to implement multi-label classification
  • example of suit derivatives is on OpenMind here:
  • played around with cerebellar transcriptomic data - need to think more about specific questions