Translationalneuromodeling Tapas Versions Save

Version 6.0.1

Fixed

• HGF: Version 7.1: Fixed bug in tapas_simModel.

Version 6.0.0

For this major release of TAPAS, we have decided to move currently unmaintained toolboxes to a dedicated TAPAS Legacy repository.

Added

• PhysIO Version 8.1.0: BIDS Read-in for separate cardiac/respiratory trace files (e.g., due to different sampling frequencies)
  • Compatibility of whole code base with Matlab compiler in order to run spm_make_standalone.

Changed

• Moved MICP,VBLM,h2gf and mpdcm toolboxes to TAPAS Legacy repository.
• HGF Version 7.0: Numerical stability improvements, various enhancements
• rDCM Version 1.4: The update includes a new function that can convert the rDCM output to the SPM format. Additionally, some small bug fixes and changes have been made. No changes to the main functionality of rDCM have been made.

Version 5.1.2

Fixed

• Fixed bug in the computation of WAIC (function tapas_waic.m). Added new function to compute log-sum_exp (function tapas_logsumexp.m).

Version 5.1.1

Fixed

• Added references to TAPAS paper (in collection and toolboxes)
• HGF: Version 6.3: Minor improvements
• rDCM: Version v1.3: Corrected bug in construction of the full posterior covariance matrix (from the region-wise posterior covariance matrices)

Version 5.1.0

This is a feature and bugfix release containing the following updates:

Added

• HUGE: Added Monte Carlo based inference (https://doi.org/10.1002/hbm.25431)

Fixed

• Fixed typos

Version 5.0.0

This is a major release containing new toolboxes and tasks:

Added

• genbed: Python package for Generative Embedding
• UniQC: unified neuroimaging quality control (beta release)
• task/BLT: breathing learning task

Note: TAPAS now contain a package (genbed) written in Python.

Version 4.0.0

This is a major release containing new toolboxes and tasks:

Added

• ceode: Toolbox to integrate delay differential equations (DDEs) underlying convolution based Dynamic Causal Models for ERPs.
• task/FDT: Filter Detection Task version 0.2.2
• citation information

Changed

• rDCM: version v1.2
• HUGE: removed deprecated functions
• external toolboxes are now managed as matlab packages

Fixed

• Fixed name collision issue due to mcmcdiag toolbox (see issue 106)

Known issues

• h2gf (beta): demo script currently does not work

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.