mwaskom lyman issues - Githubissues

mwaskom / lyman

Data pipelines and analysis library for functional MRI

http://www.cns.nyu.edu/~mwaskom/software/lyman

BSD 3-Clause "New" or "Revised" License

53 stars 22 forks source link

issues

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Fix issues with volume segmentation

#198 mwaskom closed 4 years ago
0
Adapt to changes in nipype

#197 mwaskom closed 4 years ago
1
Adapt to changes in nibabel

#196 mwaskom closed 4 years ago
0
Seperate out distortion estimation and cache results

#195 mwaskom opened 4 years ago
0
Allow Mosaic stat_img to have integer dtype

#194 mwaskom closed 5 years ago
1
Restrict vol_to_surf resampling to Freesurfer cortex

#193 mwaskom closed 5 years ago
0
Improve and enhance HRF basis model

#192 mwaskom closed 5 years ago
1
Add non-underscore suffix connector to FIR basis

#191 mwaskom closed 5 years ago
1
Add API documentation

#190 mwaskom closed 5 years ago
1
Nuisance regressors could get a second round of dimensionality reduction

#189 mwaskom opened 5 years ago
2
Develop nuisance components of linear model

#188 mwaskom closed 5 years ago
1
Add mask of brain 'edge' voxels in functional space

#187 mwaskom closed 5 years ago
1
Small fixes

#186 mwaskom closed 5 years ago
1
Add option to write time series qc movies as mp4

#185 mwaskom opened 5 years ago
1
Nodes that use convert binary consume > 100% CPU

#184 mwaskom closed 5 years ago
0
Write out a cortical ribbon mask in the template/segmentation

#183 mwaskom closed 5 years ago
1
Rename anatomical "template" workflow/outputs to "segment"

#182 mwaskom opened 5 years ago
0
Condition names that parse to numerics break in model specification

#181 mwaskom closed 5 years ago
0
Make it easier to have a single default model

#180 mwaskom opened 5 years ago
0
FD line plot in carpet plot does not adapt upper y limit to large movements

#179 mwaskom closed 5 years ago
1
Fix HRF convolution

#178 mwaskom closed 5 years ago
0
Add API documentation

#177 mwaskom closed 4 years ago
0
Add confound identification/removal

#176 mwaskom opened 5 years ago
1
Small improvements throughout

#175 mwaskom closed 5 years ago
1
Change order of processing in fit model to fail earlier with bad design

#174 mwaskom closed 5 years ago
1
(Optionally) save session-wise results

#173 mwaskom opened 5 years ago
0
session-wise preproc gets repeated when each session has multiple experiments

#172 mwaskom opened 5 years ago
2
Fix bug in design matrix resampling

#171 mwaskom closed 5 years ago
0
image_to_matrix docstring is incorrect

#170 mwaskom closed 5 years ago
0
Add FIR model basis set as HRF

#169 mwaskom closed 6 years ago
0
Incorporate FIR model in to workflows

#168 mwaskom closed 5 years ago
1
Small compatibility fixes

#167 mwaskom closed 6 years ago
1
Future warnings about numpy indexing changes

#166 mwaskom closed 5 years ago
1
Move GammaHRF to GammaBasisHRF, add single-variate version

#165 mwaskom closed 4 years ago
1
data_dictionary definition unclear that lyman requires the output of freesurfer recon-all

#164 sguthrie closed 6 years ago
1
Add docs for previous releases

#163 kastman closed 6 years ago
5
Declare dependency on nipype 0.14 and get with conda on travis

#162 mwaskom closed 6 years ago
1
Add set_subjects_dir method

#161 mwaskom opened 6 years ago
0
Switch to using MPLBACKEND for testing

#160 mwaskom closed 5 years ago
1
Assume design files have experiment name prepended

#159 mwaskom closed 6 years ago
1
API inconsistencies

#158 mwaskom opened 6 years ago
0
Better error from workflows when LYMAN_DIR is not defined

#157 mwaskom opened 6 years ago
0
Add results interface objects

#156 mwaskom opened 6 years ago
0
Improve surface smoothing and other surface operations

#155 mwaskom closed 6 years ago
1
Support for input datasets formatted according to BIDS

#154 chrisgorgo closed 6 years ago
2
Ensure that surface voxels are considered cortical gray matter in segmentation

#153 mwaskom closed 6 years ago
1
Anatomical processing planning

#152 mwaskom opened 6 years ago
0
seg and surf files do not agree about what is cortex

#151 mwaskom closed 6 years ago
0
Handle some TODOs in the model workflow

#150 mwaskom closed 6 years ago
1
Fix handling of missing contrasts in model results

#149 mwaskom closed 6 years ago
2