Ecosyste.ms: Issues

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GitHub / allencellmodeling/fov_processing_pipeline issues and pull requests

#67 - Bugfix/trim data

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#67 - Bugfix/trim data

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#65 - return fov data, record fov ids on data splits

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 3 comments

#65 - return fov data, record fov ids on data splits

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 3 comments

#64 - Allow for prefect executor to be passed in programmatically

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#64 - Allow for prefect executor to be passed in programmatically

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#63 - have the main process function return stuff

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago

#63 - have the main process function return stuff

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago

#62 - changes for path fixing and api

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#62 - changes for path fixing and api

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#61 - Integrate Pipeline Tools for automagical distributed Dask

Issue - State: open - Opened by gregjohnso almost 5 years ago

#61 - Integrate Pipeline Tools for automagical distributed Dask

Issue - State: open - Opened by gregjohnso almost 5 years ago

#60 - Pythonic API

Issue - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#60 - Pythonic API

Issue - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#59 - Ability to start pipeline at a specified location

Issue - State: open - Opened by gregjohnso almost 5 years ago
Labels: enhancement

#59 - Ability to start pipeline at a specified location

Issue - State: open - Opened by gregjohnso almost 5 years ago
Labels: enhancement

#58 - Results should get saved in correct directory names

Issue - State: open - Opened by gregjohnso almost 5 years ago - 1 comment
Labels: enhancement

#58 - Results should get saved in correct directory names

Issue - State: open - Opened by gregjohnso almost 5 years ago - 1 comment
Labels: enhancement

#57 - added functionality to split resulting data by protein name

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#57 - added functionality to split resulting data by protein name

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#56 - produce train/test splits for downstream label-free processing

Issue - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment
Labels: enhancement

#56 - produce train/test splits for downstream label-free processing

Issue - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment
Labels: enhancement

#55 - Added non-conflicting version of docutils

Pull Request - State: closed - Opened by tknijnen almost 5 years ago - 1 comment

#55 - Added non-conflicting version of docutils

Pull Request - State: closed - Opened by tknijnen almost 5 years ago - 1 comment

#54 - Adding QC functionality based on voxel intensity distributions

Issue - State: open - Opened by tknijnen almost 5 years ago
Labels: enhancement

#54 - Adding QC functionality based on voxel intensity distributions

Issue - State: open - Opened by tknijnen almost 5 years ago
Labels: enhancement

#53 - attempt to fix CI bugs

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#53 - attempt to fix CI bugs

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#52 - Enhancement/quilt

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#52 - Enhancement/quilt

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#51 - Qc wrapper update

Pull Request - State: closed - Opened by jcass11 almost 5 years ago

#51 - Qc wrapper update

Pull Request - State: closed - Opened by jcass11 almost 5 years ago

#50 - added description of main wrapper functions to the readme

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago

#50 - added description of main wrapper functions to the readme

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago

#49 - docstring for qc_stats wrapper

Pull Request - State: closed - Opened by jcass11 almost 5 years ago - 2 comments

#49 - docstring for qc_stats wrapper

Pull Request - State: closed - Opened by jcass11 almost 5 years ago - 2 comments

#48 - Added to-dos

Pull Request - State: closed - Opened by jcass11 almost 5 years ago - 1 comment

#48 - Added to-dos

Pull Request - State: closed - Opened by jcass11 almost 5 years ago - 1 comment

#47 - Move pickling to wrapper and +docstring

Pull Request - State: closed - Opened by jcass11 almost 5 years ago

#47 - Move pickling to wrapper and +docstring

Pull Request - State: closed - Opened by jcass11 almost 5 years ago

#46 - Feature/distributed

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago

#46 - Feature/distributed

Pull Request - State: closed - Opened by gregjohnso almost 5 years ago

#45 - Readme

Pull Request - State: closed - Opened by jcass11 almost 5 years ago - 1 comment

#45 - Readme

Pull Request - State: closed - Opened by jcass11 almost 5 years ago - 1 comment

#44 - Workers getting killed on FEATURE/distributed branch

Issue - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#44 - Workers getting killed on FEATURE/distributed branch

Issue - State: closed - Opened by gregjohnso almost 5 years ago - 1 comment

#43 - fov qc with tests +bugfix for channel data type

Pull Request - State: closed - Opened by jcass11 about 5 years ago - 1 comment

#43 - fov qc with tests +bugfix for channel data type

Pull Request - State: closed - Opened by jcass11 about 5 years ago - 1 comment

#42 - Build zslice interpolater for mean slice intensity to use in PCA

Issue - State: closed - Opened by jcass11 about 5 years ago - 1 comment
Labels: enhancement

#42 - Build zslice interpolater for mean slice intensity to use in PCA

Issue - State: closed - Opened by jcass11 about 5 years ago - 1 comment
Labels: enhancement

#41 - Build detector for abberant zstack ordering in fovs

Issue - State: closed - Opened by jcass11 about 5 years ago - 1 comment
Labels: enhancement

#41 - Build detector for abberant zstack ordering in fovs

Issue - State: closed - Opened by jcass11 about 5 years ago - 1 comment
Labels: enhancement

#40 - Switch to anndata

Issue - State: open - Opened by jcass11 about 5 years ago

#40 - Switch to anndata

Issue - State: open - Opened by jcass11 about 5 years ago

#39 - In process, set trimming as int not flag

Issue - State: closed - Opened by jcass11 about 5 years ago - 1 comment
Labels: enhancement

#39 - In process, set trimming as int not flag

Issue - State: closed - Opened by jcass11 about 5 years ago - 1 comment
Labels: enhancement

#38 - Clean up gregs linty lint

Pull Request - State: closed - Opened by jcass11 about 5 years ago - 3 comments

#38 - Clean up gregs linty lint

Pull Request - State: closed - Opened by jcass11 about 5 years ago - 3 comments

#37 - Linting that somehow got lost in last PR

Pull Request - State: closed - Opened by jcass11 about 5 years ago

#37 - Linting that somehow got lost in last PR

Pull Request - State: closed - Opened by jcass11 about 5 years ago

#36 - labkey to quilt

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#36 - labkey to quilt

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#35 - Feature/pca plus more fixes

Pull Request - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#35 - Feature/pca plus more fixes

Pull Request - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#34 - Fixed df indexing bug

Pull Request - State: closed - Opened by jcass11 about 5 years ago - 3 comments
Labels: bug

#34 - Fixed df indexing bug

Pull Request - State: closed - Opened by jcass11 about 5 years ago - 3 comments
Labels: bug

#33 - Crash during fresh run of `fpp_process`

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#33 - Crash during fresh run of `fpp_process`

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#32 - Fix/im2proj

Pull Request - State: closed - Opened by gregjohnso about 5 years ago

#32 - Fix/im2proj

Pull Request - State: closed - Opened by gregjohnso about 5 years ago

#31 - Fix/tests

Pull Request - State: closed - Opened by gregjohnso about 5 years ago

#31 - Fix/tests

Pull Request - State: closed - Opened by gregjohnso about 5 years ago

#30 - Place lkaccess imports at the top of the function calls

Pull Request - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#30 - Place lkaccess imports at the top of the function calls

Pull Request - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#29 - Added plotting of means over FOVs

Pull Request - State: closed - Opened by jcass11 about 5 years ago - 1 comment
Labels: enhancement

#29 - Added plotting of means over FOVs

Pull Request - State: closed - Opened by jcass11 about 5 years ago - 1 comment
Labels: enhancement

#28 - Fix/multiout row2im update

Pull Request - State: closed - Opened by jcass11 about 5 years ago - 2 comments
Labels: bug

#28 - Fix/multiout row2im update

Pull Request - State: closed - Opened by jcass11 about 5 years ago - 2 comments
Labels: bug

#27 - Added tests for fov trimming

Pull Request - State: closed - Opened by jcass11 about 5 years ago
Labels: enhancement

#27 - Added tests for fov trimming

Pull Request - State: closed - Opened by jcass11 about 5 years ago
Labels: enhancement

#26 - CI

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#26 - CI

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#25 - Feature/z intensity profile

Pull Request - State: closed - Opened by gregjohnso about 5 years ago

#25 - Feature/z intensity profile

Pull Request - State: closed - Opened by gregjohnso about 5 years ago

#24 - Force and return channel order

Pull Request - State: closed - Opened by jcass11 about 5 years ago

#24 - Force and return channel order

Pull Request - State: closed - Opened by jcass11 about 5 years ago

#23 - show organelle name in the summary table, added more resonable save s…

Pull Request - State: closed - Opened by gregjohnso about 5 years ago

#23 - show organelle name in the summary table, added more resonable save s…

Pull Request - State: closed - Opened by gregjohnso about 5 years ago

#22 - Feature/image diagnostics

Pull Request - State: closed - Opened by gregjohnso about 5 years ago

#22 - Feature/image diagnostics

Pull Request - State: closed - Opened by gregjohnso about 5 years ago

#21 - Get some z-features

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#21 - Get some z-features

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#20 - fix utils.im2proj 3-color channels

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#20 - fix utils.im2proj 3-color channels

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#19 - add organelle name to summary table

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment

#19 - add organelle name to summary table

Issue - State: closed - Opened by gregjohnso about 5 years ago - 1 comment