translationalneuromodeling / tapas

Version 3.3.0

This version contains new features and bugfixes for HGF, PhysIO, SEM and HUGE

Added

• h2gf: Hierarchical inference for the HGF, beta version released
• SERIA: Added the Watanabe Akaike information criterion (WAIC) as output.
• SERIA: Added computation of early and late response likelihood.
• SERIA: Added delta plots to output summary.

Changed

• HGF: v6.0 released
• SERIA: The constraints matrix is now automatically plot by
  tapas_sem_\display_posterior.m
• SERIA: Python code is now updated to python 3.7 and the requirement file
  now uses the latest libraries (numpy, scipy, cython).
• SERIA: Posterior plots includes fits of the complete group.
• SERIA: Summaries are automatically generated when preparing the posterior.
• PhysIO: PhysIO Toolbox Release R2020a, v7.3.0
• PhysIO: removed Matlab statistics toolbox dependency for PCA by SVD implementation (thanks to Benoît Beranger, pull request 64)

Fixed

• HUGE: fixed tick labels

Known issues

• TAPAS uses the mcmcdiag toolbox for Monte Carlo convergence diagnostics, which shadows a number of matlab built-in functions. Affected functions include: Contents.m, cusum.m, join.m and score.m. Workaround: If you use one of these functions in your own code, remove the tapas folder from your matlab path when you are not using the TAPAS toolbox.

Tapas 3.2.0

This release includes changes to PhysIO and HUGE.

Added

• HUGE: introduced object-oriented interface in addition to old interface
• HUGE: build-in unit tests
• HUGE: user manual
• PhysIO (details in tapas/PhysIO/CHANGELOG.md)
  • more unit testing and integration testing for examples
  • bandpass-filtering for cardiac data in preprocessing, user-defined max
    heart rate for peak detection

Fixed

• PhysIO: Bugfix RVT/HRV convolution had erroneous half-width shift
  • For details on the bug, its impact and fix, see our specific Release
    Info on RVT/HRV Bugfix

Changed

• HUGE: demo script reflect interface changes

This version contains improvements to several packages, including PHYSIO, HGF, Huge, rDCM and SERIA.

[3.1.0] 2019-03-26

Added

• Get revision info from Matlab.
• PhysIO R2018.1.2: BioPac txt-file reader (for single file, resp/cardiac/trigger data in different columns)
• SERIA: Automatic plotting of the seria model.
• SERIA: Example for single subject.

Fixed

• Huge: minor bugs.

Changed

• Huge: Improved documentation.
• New version of the HGF toolbox (v5.3). Details in tapas/HGF/README.md
• New version of the rDCM toolbox (v1.1). Details in tapas/rDCM/CHANGELOG.md.
• New version of the PhysIO Toolbox (R2019a-v7.1.0)
  • BIDS and BioPac readers; code sorted in modules (readin, preproc etc.),
    also reflected in figure names
  • Updated and extended all examples, and introduced unit testing
  • Full details in tapas/PhysIO/CHANGELOG.md
• Improved the documentation of SERIA.

Tapas v3.0.0 is a new major release that includes updates to most of our toolboxes (HGF, MPDCM, PHYSIO, SEM) and two new toolboxes (HUGE, rDCM).

New:

• HUGE: Variational Bayesian inversion for hierarchical unsupervised generative embedding (HUGE).
• rDCM: DCM based, efficient inference on effective brain connectivity for fMRI.

• includes PhysIO R2017.3
  • new Readers: Human Connectome Project (HCP) and Siemens multiband (CMRR) WIP Physlog files
  • extended documentation and FAQ via Wiki

This releases includes a new minor version of the HGF (5.1) and PhysIO toolbox as well as improvements to our documentation.

Highlights:

• HGF 5.1.
• Updates to the PhysIO toolbox.
• Improved documentation.

This release includes an updated version of the SERIA model.

Highlights

• The SERIA late race model is implemented.
• The underlying algorithm for computing the likelihood has been updated.
• Includes examples to run the model.

Detailed release notes can be found in sem/README.md