khanlab/hippunfold

Issues

• Temporry files writen to home directory

  #308 opened 3 months ago by JosePMarques
  5

• broken workflow, possibly in dependencies

  #312 opened 2 months ago by jordandekraker
  5

• wetrun testing

  #311 opened 2 months ago by jordandekraker
  0

• WorkflowError in file /opt/conda/lib/python3.9/site-packages/hippunfold/workflow/Snakefile, line 7: Config file must be given as JSON or YAML with keys at top level.

  #301 opened 3 months ago by VAMMGA
  3

• expanded DG

  #298 opened 4 months ago by jordandekraker
  1

• Default Atlas

  #290 opened 5 months ago by yeriguc
  3

• add better support for conda

  #171 opened 3 years ago by akhanf
  2

• Alternative simple CLI for hippunfold

  #296 opened 4 months ago by akhanf
  0

• atlas2parc

  #295 opened 4 months ago by jordandekraker
  0

• anterior-posterior subdivisions option

  #294 opened 4 months ago by akhanf
  0

• Docker untar permissions

  #293 opened 4 months ago by jordandekraker
  2

• UID Issue on Linux

  #291 opened 4 months ago by imolax
  2

• Hippunfold on pediatric data?

  #283 opened 7 months ago by oliver-xie
  3

• Segmentation Inaccuracies with degenerated hippocampi

  #287 opened 6 months ago by mchoi99
  21

• transform the native hippocapus metrics to the unfolded space

  #289 opened 5 months ago by raywell627
  4

• run inference duration

  #197 opened 5 months ago by OliverWarrington
  4

• errors while running hippunfold with slurm & snakemake

  #282 opened 5 months ago by vnbcs
  4

• Error running ds002168 (example) subject: Potentially with symbolic links?

  #266 opened 5 months ago by jlhanson5
  15

• Incomplete hippocampal volumes extraction

  #286 opened 5 months ago by cyyyuyan
  1

• Hippunfold errors out at 46%

  #285 opened 7 months ago by vnbcs
  3

• QC-related question

  #274 opened 7 months ago by oliver-xie
  3

• How to know when subjects are fully processed?

  #273 opened 8 months ago by vnbcs
  1

• another error on the ds002168 example dataset

  #272 opened 8 months ago by CogBrainHealthLab
  2

• Sampling functional data for the dentate gyrus

  #267 opened a year ago by viktor-pfaffenrot
  2

• Naming of histologyReference2023

  #254 opened a year ago by akhanf
  3

• Tutorial for transforming BigBrain to MNI

  #258 opened a year ago by andreifoldes
  3

• Question: QC/unetf3d_dice.tsv

  #259 opened a year ago by andreifoldes
  1

• sample functional data along surface

  #257 opened a year ago by viktor-pfaffenrot
  9

• small bug present when visualizing with freeview

  #239 opened a year ago by akhanf
  1

• DG surface contains self-intersection

  #241 opened a year ago by debinz
  6

• process HCP fmri on hippunfold results

  #248 opened a year ago by raywell627
  2

• label.gii and dlabel.nii files for subfields are corrupt in v1.3.0+

  #253 opened a year ago by akhanf
  0

• zero value vertices on dentate gyrus

  #245 opened a year ago by HusBunia
  4

• Converting inner/outer surface files to WM and pial format in Freesurfer

  #233 opened a year ago by khazarAhmadi
  3

• Cyclic dependency on rule warp_gii_to_native.

  #229 opened 2 years ago by debinz
  11

• Bug in crop native space

  #231 opened 2 years ago by akhanf
  1

• Windows docker instructions

  #218 opened 2 years ago by jordandekraker
  1

• long staging

  #196 opened 2 years ago by jordandekraker
  1

• Summary statistics of the surface metrics

  #206 opened 2 years ago by romeopenheiro
  3

• missing subfield.dlabel.gii outputs

  #217 opened 2 years ago by jordandekraker
  2

• resample_hippdwi_to_template container missing

  #215 opened 2 years ago by kaitj
  1

• Add DAG generation to a github action

  #212 opened 2 years ago by akhanf
  0

• unfolded DG template not rectangular

  #202 opened 2 years ago by jordandekraker
  0

• Total Intracranial volume estimates

  #182 opened 2 years ago by akhanf
  2

• `.snakebids` file not found

  #191 opened 2 years ago by romeopenheiro
  10

• Cryptic error given when running hippunfold before `hippunfold_download_models` is run

  #193 opened 2 years ago by akhanf
  3

• group-level analysis broken

  #188 opened 2 years ago by akhanf
  0

• test-time augmentation actually disabled by default

  #185 opened 2 years ago by akhanf
  0

• simplified outputs by concatenating label-hipp/dentate

  #174 opened 3 years ago by jordandekraker
  2

• error with tempmodel/nnUNet

  #173 opened 3 years ago by sheyma
  8