metaissue: create exercises for all sections

[satra]

1. FAIR Data - BIDS datasets
   talk 1: Intro to FAIR

• Intro: 16 attributes of FAIR - e.g. Is there a clear license, what is a PID, What is meant by metadata, … link attributes for 2 modules below. No real exercise here to save time
  talk 2: Standardization and BIDS
• exercise: dicom to BIDS conversion exercise: basic conversion (point towards ReproIn in next section)- but manual at this point
  talk 3: FAIR Metadata: searching and using Scicrunch
• exercise: BIDS metadata - participants.tsv and semantic annotation. Manual lookup and pyNIDM
  talk 4: Brief Intro to NIDM
• exercise: NIDM conversion tool to create sidecar file. BiDS2NIDM and Sparql query

2. Computational basis
   talk 1: Shell: Getting around the “black box”

• Exercise: Basic manipulations of command line history - turning your shell into your “notebook”
  talk 2: (Neuro)Debian/Git/GitAnnex/DataLad: Distributions and Version Control
• Exercise: Installation of sample Debian and DataLad packages, and introspection of their provenance
  talk 3: ReproEnv: Virtual machines/Containers, Neurodocker
• Exercise: Run containers - Create different environments

3. Neuroimaging Workflows
   talk 1: ReproIn: BIDS datasets straight from the MR scanner

• Exercise: Use of HeuDiConv/ReproIn and DataLad for basic neuroimaging study with complete and unambiguous provenance tracking of all actions
  talk 2: ReproFlow: Reusable scripts and environments, PROV
• Exercise: Run, rinse, and repeat
  talk 3: ReproTest: Variability sources (analysis models, operating systems, software versions)
• Exercise: Run analysis with different environments/different datasets

4. Statistics for reproducibility
   Assumes we have a csv file with say 100 subjects and columns like: “age, sex, pheno1, pheno2… “
   talk 1: evil p-value : what they are - and are not

• Exercise: test with
  talk 2:
• Exercise:
  talk 3:
• Exercise:

16:00-16:30 Conclusion & Getting Feedback
Nina Preuss, Preuss Enterprises, United States

• Surveys

[satra]

in general, perhaps 10 min talks + 15 min hands on exercises, which should leave a bit of slop factor and time for questions in each section.