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Dear colleagues,
We are pleased to announce the release of DPABI V4.3, DPABISurf V1.3 and DPARSF V5.0.
New features of DPABI_V4.3_200301 (download at http://rfmri.org/dpabi, please also update the docker file by: docker pull cgyan/dpabi):
1. Stability Analysis module was added. You can calculate volume-based and surface-based stability from DPABI->Dynamic & Stability Analyses. You can read our recent work for the details of stability measure: Li, L., Lu, B., Yan, C.G. (2019). Stability of dynamic functional architecture differs between brain networks and states. Neuroimage, 116230, doi:10.1016/j.neuroimage.2019.116230. 2. Field map correction was added, both for DPARSF and DPABISurf. If you want to perform field map Correction, you need to arrange each subject's field map DICOM files in one directory, and then put them in "FieldMap" directory under the working directory. i.e.:';... '{Working Directory}\FieldMap\PhaseDiffRaw\Subject001\xxxxx001.dcm';... '{Working Directory}\FieldMap\PhaseDiffRaw\Subject001\xxxxx002.dcm';... '...';... '{Working Directory}\FieldMap\PhaseDiffRaw\Subject002\xxxxx001.dcm';... '{Working Directory}\FieldMap\PhaseDiffRaw\Subject002\xxxxx002.dcm';... '...';... '{Working Directory}\FieldMap\Magnitude1Raw\Subject001\xxxxx001.dcm';... '{Working Directory}\FieldMap\Magnitude1Raw\Subject001\xxxxx002.dcm';... '...';... '{Working Directory}\FieldMap\Magnitude1Raw\Subject002\xxxxx001.dcm';... '{Working Directory}\FieldMap\Magnitude1Raw\Subject002\xxxxx002.dcm';... '...';... '...';... Then you can click the button of “FieldMap” button to set field map correction parameters. In most cases, you can use the default “0” value to let the program read the parameters (e.g., echo times) from the DICOM files. 3. Check data organization function added. For the new users of DPARSF and DPABISurf, most of the errors were caused by data organization! Please use DPABI->Utilities->Check Data Organization to check your data organization before running DPARSF or DPABISurf. This program will lead you to organize your data correctly with prompting messages! 4. Slice timing information read from DICOM files. If you are starting with DICOM files, you no longer need to set the slice timing correction parameters. Just leave it as default (slice number: 0), then DPARSF or DPABISurf will read the parameters from DICOM files. This new feature thanks to Dr. Chris Rorden's new dcm2niiX program (version v1.0.20190902). 5. DPARSF V5.0 now is compatible with BIDS format. You can start with BIDS format data by checking checkbox “BIDS to DPARSF” and setting “Starting Directory Name” to “BIDS”. 6. DPABISurf V1.3. Check and re-run fmriprep failed subjects. If for any reason, the program failed fmriprep running in DPABISurf, you just need to re-run starting with the step “Preprocessing with fmriprep” and set the “Starting Directory Name” to “BIDS” in DPABISurf_Pipeline. Alternatively, you can run a single checking step from DPABI->DPABISurf->Utilities->Re-Run fmriprep Failed Subjects. 7. DPABI->Utilities->DICOM Sorter. Now DICOM Sorter will remove illegal characters for file names in DICOM sorter. E.g., a subject id of “Wang’#$#’s” will no longer cause a problem in sorting DICOM files. 8. y_Call_DPABISurf_VIEW_FromVolume.m and y_Call_DPABISurf_VIEW.m were added. Now you can use script to call DPABISurf_VIEW to generate surface maps (with higher quality now) in batch. Remember to add “close all” in the for loop to prevent too many windows.
Tips: 1) For Linux or Mac OS, please start matlab from terminal in order to reach docker in DPABI (e.g., Linux: matlab; Mac: open /Applications/MATLAB_R2018a.app/). 2) Before running DPABISurf_Pipeline, you can test the docker environment by running DPABI->DPABISurf->Utilities->Volume-Surface Projector. If the file can be successfully projected to surface, then the software is all set.
Best, Chao-Gan