Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / yeatmanlab/pyAFQ issues and pull requests
#1064 - List the tissue properties that get profiled.
Issue -
State: open - Opened by arokem 11 months ago
#1063 - List the white matter bundles that are delineated by the software
Issue -
State: open - Opened by arokem 11 months ago
#1062 - How do you recalculate tract profiles?
Issue -
State: open - Opened by arokem 11 months ago
#1061 - How do you add images from a different space? For example, qT1.
Issue -
State: open - Opened by arokem 11 months ago
#1060 - What output should you expect?
Issue -
State: open - Opened by arokem 11 months ago
#1059 - What is the default behavior of pyAFQ? Contrast with DIPY defaults.
Issue -
State: open - Opened by arokem 11 months ago
#1058 - How to set all the different parameters.
Issue -
State: open - Opened by arokem 11 months ago
#1057 - Getting started running pyAFQ: step-by-step for
Issue -
State: open - Opened by arokem 11 months ago
#1056 - More documentation
Issue -
State: open - Opened by arokem 11 months ago
- 1 comment
#1055 - DOC: finish tractometry figure
Pull Request -
State: closed - Opened by 36000 11 months ago
- 4 comments
#1054 - Does Stanford HARDI dataset still have PipelineDescription?
Issue -
State: open - Opened by arokem 11 months ago
#1053 - [doc] make afq tractometry pipeline page, reorganize usage section
Pull Request -
State: closed - Opened by 36000 11 months ago
#1052 - ENH allow removal of profiles.csv; allow setting n_nodes in profile; make callosal bundles the default
Pull Request -
State: closed - Opened by 36000 11 months ago
- 3 comments
#1051 - DOC: Extensive documentation improvements
Pull Request -
State: closed - Opened by arokem 11 months ago
- 3 comments
#1050 - Potential compatibility issues between numpy and vtk?
Issue -
State: closed - Opened by chiuhoward 11 months ago
- 1 comment
#1049 - [ENH] add some utilities for working with altair and pyafq
Pull Request -
State: closed - Opened by 36000 11 months ago
- 2 comments
#1048 - [FIX] bf for roi clipping
Pull Request -
State: closed - Opened by 36000 11 months ago
- 10 comments
#1047 - Edge clipping raises error
Issue -
State: closed - Opened by arokem 12 months ago
- 1 comment
#1046 - [ENH] add line width argument to fury
Pull Request -
State: closed - Opened by 36000 12 months ago
#1045 - Seeding at the GM/WM interface
Issue -
State: open - Opened by arokem 12 months ago
#1044 - Integrate better CSA and GQI2 for tractography
Issue -
State: open - Opened by 36000 12 months ago
#1043 - Preparations for numpy 2.0
Issue -
State: open - Opened by arokem 12 months ago
#1042 - RF: Update call to seaborn plotting.
Pull Request -
State: closed - Opened by arokem 12 months ago
#1041 - [ENH,FIX] Integrate more steps into the segmentation pipeline
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 1 comment
#1040 - Trying out a variety of newer Python versions.
Pull Request -
State: open - Opened by arokem about 1 year ago
#1039 - GroupAFQ and BIDS error
Issue -
State: closed - Opened by radhi-bhalerao about 1 year ago
- 2 comments
#1038 - [FIX] pin astroid
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 4 comments
#1037 - [enh] set afq home
Pull Request -
State: closed - Opened by 36000 about 1 year ago
#1036 - Allow user to define where AFQ_HOME is
Issue -
State: closed - Opened by arokem about 1 year ago
#1035 - [ENH] more specific bids entities and fixes to be bids compatible
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 7 comments
#1034 - Unable to create the 'tract_profile_plots' output folder
Issue -
State: closed - Opened by tpatpa about 1 year ago
- 1 comment
#1033 - Memory demands of segmentation
Issue -
State: open - Opened by arokem about 1 year ago
- 1 comment
#1032 - tracking and segmentation params
Issue -
State: open - Opened by 36000 about 1 year ago
- 1 comment
#1031 - [FIX] download LV1 roi in this example
Pull Request -
State: closed - Opened by 36000 about 1 year ago
#1030 - [FIX] set default back to serial
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 2 comments
#1029 - Remove unused MPL import
Pull Request -
State: closed - Opened by arokem about 1 year ago
- 1 comment
#1028 - ModuleNotFoundError for Matplotlib
Issue -
State: closed - Opened by tpatpa about 1 year ago
- 5 comments
#1027 - Use cudipy for GPU-based acceleration
Issue -
State: open - Opened by arokem about 1 year ago
#1026 - Update installation_guide.rst
Pull Request -
State: closed - Opened by chiuhoward about 1 year ago
#1025 - Adds an option to build the docs without running the examples.
Pull Request -
State: closed - Opened by arokem about 1 year ago
#1024 - ValueError: No file found with these parameters: suffix, session, subject, filters, near path
Issue -
State: closed - Opened by chiuhoward about 1 year ago
- 1 comment
#1023 - NameError: name 'TrxFile' is not defined (for RecoBundles and plot AFQ examples)
Issue -
State: closed - Opened by chiuhoward about 1 year ago
- 1 comment
#1022 - Update installation_guide.rst
Pull Request -
State: closed - Opened by chiuhoward about 1 year ago
- 1 comment
#1021 - Unable to complete baby_AFQ tutorial (viz = myafq.export("all_bundles_figure"))
Issue -
State: closed - Opened by chiuhoward about 1 year ago
- 2 comments
#1020 - Fence the TRX test by checking whether TRX is installed.
Pull Request -
State: closed - Opened by arokem about 1 year ago
- 1 comment
#1019 - add "GeneratedBy"s in `dataset_description.json` for BIDS 1.4+ compliance
Pull Request -
State: closed - Opened by pierre-nedelec about 1 year ago
#1018 - BIDS v1.4+ requires "GeneratedBy" instead of "PipelineDescription" in `dataset_description.json`
Issue -
State: closed - Opened by pierre-nedelec about 1 year ago
#1017 - Removes some of the sphinx gallery ignore patterns.
Pull Request -
State: closed - Opened by arokem about 1 year ago
- 4 comments
#1016 - WIP: Example visually showing the stages of tractometry.
Pull Request -
State: closed - Opened by arokem about 1 year ago
#1015 - [FIX] delete folders in AFQ derivatives when clobbering
Pull Request -
State: closed - Opened by 36000 about 1 year ago
#1014 - [ENH] Proposal for better bd management
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 1 comment
#1013 - Issue with tractography output files and BIDS format
Issue -
State: closed - Opened by pierre-nedelec about 1 year ago
- 5 comments
#1012 - Update the pypi action so that it runs on latest ubuntu.
Pull Request -
State: closed - Opened by arokem about 1 year ago
#1011 - [FIX] typo in hbn fetcher
Pull Request -
State: closed - Opened by 36000 about 1 year ago
#1010 - Installation fails with Python 3.11
Issue -
State: closed - Opened by dkp about 1 year ago
- 3 comments
#1009 - RF: Set dask as the default paralellization engine.
Pull Request -
State: closed - Opened by arokem about 1 year ago
- 1 comment
#1008 - Memory leak?
Issue -
State: closed - Opened by jyeatman about 1 year ago
- 12 comments
#1007 - [ENH] add OR pediatric bundle definition, make it easier to add future pediatric bundles
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 2 comments
#1006 - Incorporate TRX
Pull Request -
State: closed - Opened by arokem about 1 year ago
- 3 comments
#1005 - WIP: Trying to incorporate a notebook into the doc build.
Pull Request -
State: open - Opened by arokem about 1 year ago
#1004 - Updates reference documentation with recent additions to kwargs/methods.
Pull Request -
State: closed - Opened by arokem about 1 year ago
- 2 comments
#1003 - Add an endpoint or exclusion ROI for infant ATR
Issue -
State: open - Opened by arokem about 1 year ago
#1002 - added more documentation of dependencies
Pull Request -
State: closed - Opened by chiuhoward about 1 year ago
- 1 comment
#1001 - Combine bundles rendering
Issue -
State: open - Opened by jyeatman about 1 year ago
#1000 - WIP: Adds a notebook with a rather complete baby_afq tutorial.
Pull Request -
State: open - Opened by arokem about 1 year ago
- 1 comment
#999 - [Doc] add an example of single subject rois; reduce example time
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 2 comments
#998 - Upstream fast mahalanobis calculation
Issue -
State: closed - Opened by arokem about 1 year ago
#997 - Slf123new
Pull Request -
State: closed - Opened by jyeatman about 1 year ago
- 2 comments
#996 - Fetchers/readers could return human-readable paths
Issue -
State: closed - Opened by arokem about 1 year ago
- 1 comment
#995 - added a new tutorial to segment the SLF1/2/3
Pull Request -
State: closed - Opened by jyeatman about 1 year ago
- 2 comments
#994 - [ENH] Bundle montage
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 5 comments
#993 - Update plot_viz.py
Pull Request -
State: closed - Opened by mayayab about 1 year ago
- 1 comment
#992 - DOC: Myst
Pull Request -
State: closed - Opened by arokem about 1 year ago
#991 - Update setup.cfg with newer pybids
Pull Request -
State: closed - Opened by pierre-nedelec about 1 year ago
- 1 comment
#990 - Update to most recent pybids for faster indexing
Issue -
State: closed - Opened by pierre-nedelec about 1 year ago
- 1 comment
#989 - Examples should be jupyter notebooks to make it easier to write text
Issue -
State: open - Opened by 36000 about 1 year ago
- 1 comment
#988 - Installation with quotes
Pull Request -
State: closed - Opened by arokem about 1 year ago
- 2 comments
#987 - [BUG] We need to remove these lines, no longer true
Issue -
State: closed - Opened by 36000 about 1 year ago
#986 - [ENH] update dipy
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 2 comments
#985 - [FIX] fix a small bug in the curvature code
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 4 comments
#984 - We might want to update the default probability threshold to be higher than 0
Issue -
State: open - Opened by 36000 about 1 year ago
- 2 comments
#983 - Use a simpler way of using tqdm on the tractography
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 5 comments
#982 - [ENH] Much faster mahal cleaning
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 3 comments
#981 - [FIX] Remove itk
Pull Request -
State: closed - Opened by 36000 about 1 year ago
- 1 comment
#979 - Participant AFQ versus GroupAFQ
Issue -
State: closed - Opened by radhi-bhalerao about 1 year ago
#978 - Speed-memory tradeoff in reading from probability maps?
Issue -
State: closed - Opened by arokem over 1 year ago
- 2 comments
#977 - [ENH] Adds export_up_to, adds some minor fixes here and there
Pull Request -
State: closed - Opened by 36000 over 1 year ago
#976 - [ENH] allow the setting of number of voxels for a seed mask
Pull Request -
State: closed - Opened by 36000 over 1 year ago
- 1 comment
#975 - [FIX] split GPU pyafq docker builds into differnet actions
Pull Request -
State: closed - Opened by 36000 over 1 year ago
- 1 comment
#974 - How to address `CsdNanResponseError`?
Issue -
State: closed - Opened by smeisler over 1 year ago
- 2 comments
#973 - [ENH] Calculate new curvature metric manually
Pull Request -
State: closed - Opened by 36000 over 1 year ago
- 1 comment
#972 - [ENH] add CUDA 12 compat to GPU tractography
Pull Request -
State: closed - Opened by 36000 over 1 year ago
- 1 comment
#971 - [ENH] allow GPU docker file to play nice with singularity
Pull Request -
State: closed - Opened by 36000 over 1 year ago
- 1 comment
#970 - Interface with ModelArray
Issue -
State: open - Opened by arokem over 1 year ago
- 1 comment
#969 - [DOC] show memory add the end of examples
Pull Request -
State: closed - Opened by 36000 over 1 year ago
#968 - NF: Adds fetcher for cerebellar peduncle waypoint ROIs.
Pull Request -
State: closed - Opened by arokem over 1 year ago
- 8 comments
#967 - OSError and URLError in myafq.export
Issue -
State: closed - Opened by snaillyd over 1 year ago
- 6 comments
#966 - Infant pipeline troubleshooting
Issue -
State: closed - Opened by TeddyTuresky over 1 year ago
- 6 comments
#965 - Default seed threshold should not be 0
Issue -
State: closed - Opened by arokem over 1 year ago
- 6 comments
#964 - Adds back reference documentation to reference section.
Pull Request -
State: closed - Opened by arokem over 1 year ago