r20210726

• Standalone brain processing pipeline written in Nextflow DSL2:
  • Workflow components are divided into modules
  • One-process one-container mapping is followed (qmrlab/antsfsl and qmrlab/minimal:v2.5.0b)
  • Added MP2RAGE. Some of the parameters that cannot be inferred from metadata is added manually based on CNeuromod protocol PDF and relevant notes are added to the sidecar json.
  • Added MTR.
  • All the map units are made compatible with BIDS v1.5.0
  • FSL's FAST is used per subject/session for GM/WM segmentation on T1w high-resolution image. Then T1w --> MTS (T1w) and T1w --> MP2RAGE (inv2) rigidly aligned. Resultant deformation fields are used to transform region masks to the respective domains.
  • Descriptive stats are exported along with relevant metadata to a csv.
• Results of brain data (neuromod-anat-brain-qmri.zip) are uploaded as part of this release (CSV + log files + wortkflow execution reports)