NeuroDOT News

NeuroDOT Request for Feedback

Emma Speh — Tue, 12 Mar 2024 3:44:33 GMT

NeuroDOT is actively interested in obtaining community feedback engagement on our GitHub page (https://github.com/WUSTL-ORL/NeuroDOT), the openfNIRS forum (https://openfnirs.org/community/neurodot-forum/), and here on NITRC.

If you have any suggestions or questions regarding NeuroDOT, please submit your feedback through this Google Form: https://forms.gle/iEYfEZhfj99FVEs29

-Emma Speh

New GitHub Release: NeuroDOT v1.3

Emma Speh — Wed, 06 Mar 2024 2:36:49 GMT

Latest NeuroDOT release, v1.3, is now available from GitHub.

Changes since version 1.3 include:

1. Updates to Visualization functions:
PlotCapData: updated source/detector spacing
PlotMeshSurface: fixed facecolor parameter for case without data
PlotSlices, PlotSlice, PlotSlicesTimeTrace: adjusted colorbar settings, added white background ‘bgW’ parameter
Plot_RawData_Metrics_I_DQC: added params.LFO_GI to select which measurments to show in LFO plot
Applycmap: compatibility with params.BG when all elements are equal to zero
Adjust_brain_pos, PlotLRMeshes, PlotMeshSurface: added flat map ‘Fnodes’ case
Plot_RawData_Cap_DQC, PlotCapPhysiologyPower: fixed SNR DQ metrics to compute based on the correct method
DrawColoredSynchPoints: added colors to plot for up to 7 different pulses

2. Format Compatibility updates:
Snirf2ndot & Nirs2ndot: enforce column organization of optode position arrays
LoadVolumetricData, SaveVolumetricData, Nifti_4dfp: compatibility with volumetric data in sagittal and coronal orientations, compatibility with 4D data
Updated all functions using info.pairs and info.MEAS to be compatible with tables

3. Other function updates:
GLM_181206: Added R squared output
Added ParcelBased_fc function
Added Matrix_Org3 and freezeColors functions to Visualizations

4. Tutorial & Documentation updates:
Light Modeling: updated all light modeling scripts to use makeAnirfaster, added tutorial for Light Modeling with a subset of measurements, and added tutorial for Light Modeling with a split-pad layout
Loading Raw Data script and PowerPoint added for loading .snirf, .nirs, and .mat data
Added Script_for_Viewing_Parcels for parcel-based functional-connectivity analysis
Added NeuroDOT Tutorials ReadMe file
Updated NeuroDOT Quick Start Guide

New GitHub Release: NeuroDOT v1.2

Emma Speh — Wed, 05 Jul 2023 1:07:12 GMT

Latest NeuroDOT release, v1.2, is now available from GitHub.

Changes since version 1.1 include:
Updated compatibility with SNIRF format
Added NIRS format compatibility
Added NIFTI format compatibility
Updated NeuroDOT Tutorial PowerPoints and Scripts
Updates to AlignMe

NeuroDOT Tutorials Available to Download

Emma Speh — Tue, 27 Jun 2023 2:23:28 GMT

Updated versions of each NeuroDOT tutorial PowerPoint and accompanying Matlab script can be downloaded here, or from GitHub (https://github.com/WUSTL-ORL/NeuroDOT).

Schroeder et al. 2023 Language Production data to be posted

Emma Speh — Wed, 14 Jun 2023 12:52:45 GMT

The paper, https://doi.org/10.1016/j.neuroimage.2023.120190 was recently published.

The data used for this paper will be posted here in the SNIRF format in the next few weeks.

Resting State Dataset released

Emma Speh — Wed, 08 Mar 2023 1:43:42 GMT

9 resting state datasets collected using a HD-DOT system at Washington University in St. Louis, packaged using NeuroDOT. To download, you will need to be signed in to a NITRC account.

AT Eggebrecht et al., "Mapping distributed brain function and networks with diffuse optical tomography," Nature Photonics, 8, 448-454 (2014).

sfNIRS Workshop Preparation Materials

Emma Speh — Thu, 06 Oct 2022 5:58:25 GMT

A file has been uploaded to the package 'sfNIRS 2022 Workshop' detailing steps for those who will be attending the educational course: 'Diffuse Optical Mapping of Human Brain Function using NIRFAST and NeuroDOT: A Hands-on course' at the sfNIRS conference in Boston, MA on 10/8 from 2:00pm-4:50pm EST.

NeuroDOT_py for Pre Processing Release

Emma Speh — Wed, 15 Jun 2022 7:09:47 GMT

The GitHub repository for NeuroDOT_py is available, as it is currently in development, to be used for the 'Data Pre Processing and Temporal Analyses' section of the educational course at OHBM 2022.