flatironinstitute/cryo-em-heterogeneity-challenge-1 issues and pull requests

#100 - Implementation of external Zernike3D distance

Pull Request - State: open - Opened by DavidHerreros 2 months ago - 6 comments

#100 - Implementation of external Zernike3D distance

Pull Request - State: open - Opened by DavidHerreros 2 months ago - 6 comments

#99 - merge dev into main

Pull Request - State: closed - Opened by geoffwoollard 2 months ago

#99 - merge dev into main

Pull Request - State: closed - Opened by geoffwoollard 2 months ago

#98 - Merge dev into main

Pull Request - State: closed - Opened by geoffwoollard 2 months ago

#98 - Merge dev into main

Pull Request - State: closed - Opened by geoffwoollard 2 months ago

#97 - torch mmap instead of numpy

Pull Request - State: closed - Opened by geoffwoollard 2 months ago - 1 comment
Labels: enhancement

#97 - torch mmap instead of numpy

Pull Request - State: closed - Opened by geoffwoollard 2 months ago - 1 comment
Labels: enhancement

#96 - alignment invariant map to map distance

Issue - State: open - Opened by geoffwoollard 3 months ago

#96 - alignment invariant map to map distance

Issue - State: open - Opened by geoffwoollard 3 months ago

#95 - 51 reduce memory burden of pipeline

Pull Request - State: closed - Opened by geoffwoollard 3 months ago - 3 comments
Labels: enhancement

#95 - 51 reduce memory burden of pipeline

Pull Request - State: closed - Opened by geoffwoollard 3 months ago - 3 comments
Labels: enhancement

#94 - Current preprocessing pipeline

Pull Request - State: closed - Opened by DSilva27 3 months ago

#94 - Current preprocessing pipeline

Pull Request - State: closed - Opened by DSilva27 3 months ago

#93 - 60 improve svd pipeline with randomized svd

Pull Request - State: open - Opened by DSilva27 3 months ago

#93 - 60 improve svd pipeline with randomized svd

Pull Request - State: open - Opened by DSilva27 3 months ago

#92 - Centering every volume

Pull Request - State: closed - Opened by Miro-Astore 3 months ago

#92 - Centering every volume

Pull Request - State: closed - Opened by Miro-Astore 3 months ago

#91 - alignment preprocessing - align all maps in submission to reference

Issue - State: closed - Opened by geoffwoollard 4 months ago - 2 comments
Labels: enhancement, high priority

#91 - alignment preprocessing - align all maps in submission to reference

Issue - State: closed - Opened by geoffwoollard 4 months ago - 2 comments
Labels: enhancement, high priority

#90 - Align all volumes to reference volume in preprocessing

Issue - State: closed - Opened by DSilva27 4 months ago

#90 - Align all volumes to reference volume in preprocessing

Issue - State: closed - Opened by DSilva27 4 months ago

#89 - Create a global config.py for the repo

Issue - State: open - Opened by DSilva27 4 months ago

#89 - Create a global config.py for the repo

Issue - State: open - Opened by DSilva27 4 months ago

#88 - merge dev to main

Pull Request - State: closed - Opened by geoffwoollard 4 months ago - 1 comment

#88 - merge dev to main

Pull Request - State: closed - Opened by geoffwoollard 4 months ago - 1 comment

#87 - docs for map to map distances

Pull Request - State: closed - Opened by geoffwoollard 4 months ago

#87 - docs for map to map distances

Pull Request - State: closed - Opened by geoffwoollard 4 months ago

#86 - Add documentation to Map2Map distances

Issue - State: closed - Opened by DSilva27 4 months ago - 1 comment
Labels: documentation

#86 - Add documentation to Map2Map distances

Issue - State: closed - Opened by DSilva27 4 months ago - 1 comment
Labels: documentation

#85 - Resolution metric

Pull Request - State: closed - Opened by geoffwoollard 4 months ago - 1 comment
Labels: enhancement

#85 - Resolution metric

Pull Request - State: closed - Opened by geoffwoollard 4 months ago - 1 comment
Labels: enhancement

#84 - add linting check

Pull Request - State: closed - Opened by DSilva27 4 months ago

#84 - add linting check

Pull Request - State: closed - Opened by DSilva27 4 months ago

#83 - Add linting test - enforce pre-commit definitions

Issue - State: closed - Opened by DSilva27 4 months ago

#83 - Add linting test - enforce pre-commit definitions

Issue - State: closed - Opened by DSilva27 4 months ago

#82 - 14 implement power spectrum normalization

Pull Request - State: closed - Opened by DSilva27 4 months ago - 2 comments

#82 - 14 implement power spectrum normalization

Pull Request - State: closed - Opened by DSilva27 4 months ago - 2 comments

#81 - 14 implement power spectrum normalization

Pull Request - State: closed - Opened by DSilva27 4 months ago

#81 - 14 implement power spectrum normalization

Pull Request - State: closed - Opened by DSilva27 4 months ago

#80 - external map to map distance

Issue - State: open - Opened by geoffwoollard 4 months ago
Labels: enhancement

#80 - external map to map distance

Issue - State: open - Opened by geoffwoollard 4 months ago
Labels: enhancement

#79 - remove pytorch dependency for parsing .pt

Issue - State: open - Opened by geoffwoollard 4 months ago - 4 comments
Labels: enhancement, high priority

#79 - remove pytorch dependency for parsing .pt

Issue - State: open - Opened by geoffwoollard 4 months ago - 4 comments
Labels: enhancement, high priority

#78 - 75 reduce size of testing files

Pull Request - State: closed - Opened by DSilva27 4 months ago - 1 comment

#78 - 75 reduce size of testing files

Pull Request - State: closed - Opened by DSilva27 4 months ago - 1 comment

#77 - remove caching as it is causing false negatives in testing

Pull Request - State: closed - Opened by DSilva27 4 months ago

#77 - remove caching as it is causing false negatives in testing

Pull Request - State: closed - Opened by DSilva27 4 months ago

#76 - add a way to limit how many volumes are loaded during preprocessing

Issue - State: open - Opened by DSilva27 4 months ago - 2 comments
Labels: enhancement

#76 - add a way to limit how many volumes are loaded during preprocessing

Issue - State: open - Opened by DSilva27 4 months ago - 2 comments
Labels: enhancement

#75 - Reduce size of testing files

Issue - State: closed - Opened by DSilva27 4 months ago

#75 - Reduce size of testing files

Issue - State: closed - Opened by DSilva27 4 months ago

#74 - added flavor keys

Pull Request - State: closed - Opened by Miro-Astore 4 months ago - 1 comment

#74 - added flavor keys

Pull Request - State: closed - Opened by Miro-Astore 4 months ago - 1 comment

#73 - Add flavor keys to preprocessing json files.

Issue - State: closed - Opened by Miro-Astore 4 months ago

#73 - Add flavor keys to preprocessing json files.

Issue - State: closed - Opened by Miro-Astore 4 months ago

#72 - implement submission version and volume flipping

Pull Request - State: closed - Opened by DSilva27 4 months ago

#72 - implement submission version and volume flipping

Pull Request - State: closed - Opened by DSilva27 4 months ago

#71 - Revert "64 set up GitHub lfs for testing, and ruff for linting"

Pull Request - State: closed - Opened by DSilva27 4 months ago

#71 - Revert "64 set up GitHub lfs for testing, and ruff for linting"

Pull Request - State: closed - Opened by DSilva27 4 months ago

#70 - Remove usage of git LFS

Issue - State: closed - Opened by DSilva27 4 months ago

#70 - Remove usage of git LFS

Issue - State: closed - Opened by DSilva27 4 months ago

#69 - For the "version" of submissions there are all sorts of bugs

Issue - State: closed - Opened by Miro-Astore 4 months ago - 1 comment

#69 - For the "version" of submissions there are all sorts of bugs

Issue - State: closed - Opened by Miro-Astore 4 months ago - 1 comment

#68 - Revert "expanded ice cream flavor list"

Pull Request - State: closed - Opened by DSilva27 4 months ago

#68 - Revert "expanded ice cream flavor list"

Pull Request - State: closed - Opened by DSilva27 4 months ago

#67 - 58 update preprocessing pipeline add resubmission version

Pull Request - State: closed - Opened by DSilva27 4 months ago - 1 comment

#67 - 58 update preprocessing pipeline add resubmission version

Pull Request - State: closed - Opened by DSilva27 4 months ago - 1 comment

#66 - 64 set up GitHub lfs for testing, and ruff for linting

Pull Request - State: closed - Opened by DSilva27 4 months ago - 1 comment

#66 - 64 set up GitHub lfs for testing, and ruff for linting

Pull Request - State: closed - Opened by DSilva27 4 months ago - 1 comment

#65 - expanded ice cream flavor list

Pull Request - State: closed - Opened by Miro-Astore 4 months ago

#65 - expanded ice cream flavor list

Pull Request - State: closed - Opened by Miro-Astore 4 months ago

#64 - Set up GitHub LFS for testing, and ruff for linting

Issue - State: closed - Opened by DSilva27 4 months ago

#64 - Set up GitHub LFS for testing, and ruff for linting

Issue - State: closed - Opened by DSilva27 4 months ago

#63 - Make the flip keyword optional in json config files

Issue - State: open - Opened by Miro-Astore 4 months ago - 1 comment

#63 - Make the flip keyword optional in json config files

Issue - State: open - Opened by Miro-Astore 4 months ago - 1 comment

#62 - 59 add handedness flipping as a flag to preprocessing pipeline

Pull Request - State: closed - Opened by DSilva27 4 months ago

#62 - 59 add handedness flipping as a flag to preprocessing pipeline

Pull Request - State: closed - Opened by DSilva27 4 months ago

#61 - Merge dev into main

Pull Request - State: closed - Opened by geoffwoollard 4 months ago

#61 - Merge dev into main

Pull Request - State: closed - Opened by geoffwoollard 4 months ago

#60 - Improve SVD pipeline

Issue - State: open - Opened by DSilva27 4 months ago - 1 comment

#60 - Improve SVD pipeline

Issue - State: open - Opened by DSilva27 4 months ago - 1 comment

#59 - Add handedness flipping as a flag to preprocessing pipeline

Issue - State: closed - Opened by DSilva27 4 months ago

#59 - Add handedness flipping as a flag to preprocessing pipeline

Issue - State: closed - Opened by DSilva27 4 months ago

#58 - Update preprocessing pipeline - add resubmission version

Issue - State: closed - Opened by DSilva27 4 months ago

#58 - Update preprocessing pipeline - add resubmission version

Issue - State: closed - Opened by DSilva27 4 months ago

#57 - refer to dataset_2_ground_truth in config files

Pull Request - State: closed - Opened by geoffwoollard 4 months ago
Labels: documentation

#57 - refer to dataset_2_ground_truth in config files

Pull Request - State: closed - Opened by geoffwoollard 4 months ago
Labels: documentation

#56 - 51 reduce memory burden of pipeline

Pull Request - State: closed - Opened by DSilva27 4 months ago - 2 comments
Labels: enhancement

#56 - 51 reduce memory burden of pipeline

Pull Request - State: closed - Opened by DSilva27 4 months ago - 2 comments
Labels: enhancement

#55 - Change config validators to OmegaConf

Issue - State: open - Opened by DSilva27 4 months ago - 1 comment

#55 - Change config validators to OmegaConf

Issue - State: open - Opened by DSilva27 4 months ago - 1 comment

#54 - set up repo for better management of OSF downloads

Pull Request - State: closed - Opened by DSilva27 4 months ago

#54 - set up repo for better management of OSF downloads

Pull Request - State: closed - Opened by DSilva27 4 months ago

#53 - Set up scripts for data download and upload files to OSF

Issue - State: closed - Opened by DSilva27 4 months ago - 2 comments

#53 - Set up scripts for data download and upload files to OSF

Issue - State: closed - Opened by DSilva27 4 months ago - 2 comments

#52 - script do download data from OSF

Issue - State: closed - Opened by geoffwoollard 5 months ago - 1 comment
Labels: documentation, enhancement

#52 - script do download data from OSF

Issue - State: closed - Opened by geoffwoollard 5 months ago - 1 comment
Labels: documentation, enhancement

#51 - reduce memory burden of pipeline

Issue - State: open - Opened by geoffwoollard 5 months ago - 5 comments
Labels: high priority

#51 - reduce memory burden of pipeline

Issue - State: open - Opened by geoffwoollard 5 months ago - 5 comments
Labels: high priority

GitHub / flatironinstitute/cryo-em-heterogeneity-challenge-1 issues and pull requests