hippunfold
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khanlab
BIDS App for Hippunfold (automated hippocampal unfolding and subfield segmentation)
Hi Jordan, I hope you are well. I am writing to clear up a confusion I had. In the Hippunfold documentation, it is written that when no atlas is specified...
Hi there, I am currently trying to segment the hippocampal subfield of AD and MCI patients using hippunfold, and it seems like there are many inaccuracies with the segmentation outputs...
Hi Jordan, I am aware that Hippunfold was trained with adult data, and I am curious if you have already validated Hippunfold on kids' data or have plans to do...
Add links and documentation for some of the extended projects being worked on by me (eg. matlab code for visualization of DG), Brad (matlab code for laplace-constrained DWI modelling), Uzair...
Lately i've been submitting hippunfold jobs from within a `regularSubmit -j LongSkinny` job because building the DAG and staging takes so long. Possible bottlenecks: - If my understanding is correct,...
Is there a way to get the summary statistics for each of the surface metrics? I am looking to get the mean of the thickness, gyrification, and curvature. If you...
I started making one awhile ago, but now with the new subgraph dags (added in #209) would be good to revisit this automation: https://github.com/khanlab/hippunfold/blob/118693a02bdc286bc7fd50568298c480d4f1fc35/.github/workflows/dags.yml
TIV is a necessity for volumetry so would be nice to include an estimate in the output volume TSV files. Could use the freesurfer approach which extracts it from a...
This is just an idea, and I'd like to hear feedback @akhanf @royhaast @myousif9 @Bradley-Karat I was thinking it might be nice to concatenate label-`hipp` and `dentate` output files (they...
Currently we are using poetry for dependency management, but could be nice to also add direct support for conda (e.g. avoiding problems as in #168). Could: - create a conda...