BrainMap Research Workshop Materials
Notice: These materials are from the previous workshop iteration. They will be updated for 2023 shortly. Thank you for your patience.
Taxonomy
The BrainMap Taxonomy describes the experimental design of neuroimaging publications. It has many parts, but in particular:
- Types of papers: eligibility, task and structural, sparse coding
- Behavioral Domains: the cognitive behavior isolated by the experiment
- Paradigm Classes: the type of task the subjects perform
Scribe
Scribe prepares publications for entry into our databases by encoding them using our taxonomy.
The latest version of the software is available from brainmap.org/scribe.
Scribe manual: manual_sparse.pdf
Scribe Training Videos (zip files):
Scribe example files:
Sleuth
Sleuth searches our databases, creates "workspace" data-sets, plots coordinates in Talairach space, and supports exporting data for further analysis. The most recent version adds a "filter" search field that lets you quickly find studies within your workspace and refine your dataset. It can be downloaded from brainmap.org/sleuth.
Sleuth manual: manual.pdf
Sleuth requires a user account, but for the workshop you can use:
User: workshop
Password: workshop19
Sleuth Training Video (zip files):
GingerALE
GingerALE can perform analyses in Talairach or MNI space, and includes a tool for converting between them. Several thresholding options are available: P value, Family-wise Error (FWE) correction by voxel-wise ALE value or by cluster-size. Areas passing the threshold are described in "cluster stats". It is also useful for meta-analytic connectivity analysis (MACM). It can be downloaded from brainmap.org/ale.
GingerALE manual: manual.pdf
GingerALE example files:
- Single data-set example: GingerALE-Single.zip
- Contrast data-sets example: GingerALE-Contrast.zip
PRISMA Consort Spreadsheet: PRISMA_TABLE_MDD_example.xlsx
Mango
Mango is a powerful image viewing and analysis program.
The latest desktop version is available for download.
Behavioral Analysis and Paradigm Analysis can be added to Mango as plug-ins.
Mango example files:
- Intro: [43MB zip]
- Analysis: [195MB zip]
- Interpretation: [48MB zip]
- Visualization: [46MB zip]
- GingerALE example results: [1.5MB zip]
