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GitHub / Vizgen/vizgen-postprocessing issues and pull requests

#34 - chore: Specify version of docker image in workflow

Pull Request - State: closed - Opened by timwiggin 5 months ago

#33 - chore: Pin sphinx dependencies

Pull Request - State: closed - Opened by timwiggin 5 months ago

#32 - feat: Support for Cellpose 2 workflow

Pull Request - State: closed - Opened by timwiggin 5 months ago

#29 - json "stain" Mismatch

Issue - State: open - Opened by zhenzuo2 8 months ago

#28 - .vzg update- runtime error ('Type')

Issue - State: open - Opened by katielong3768 8 months ago - 9 comments

#26 - Convert HDF5 to PARQUET

Issue - State: open - Opened by Byronxy 9 months ago - 1 comment

#25 - No Fov information in cell_metadata.csv

Issue - State: open - Opened by anidj 10 months ago

#24 - information relative to the data folder

Issue - State: open - Opened by anidj 10 months ago

#23 - update-vzg failed with index out of bounds error

Issue - State: open - Opened by tangboyun 10 months ago

#22 - Invalid value encountered in intersection

Issue - State: closed - Opened by gautam-prab 10 months ago - 1 comment

#21 - importing segmentation masks

Issue - State: open - Opened by pr4deepr 11 months ago - 3 comments

#20 - cannot use custom cellpose model

Issue - State: closed - Opened by pr4deepr 11 months ago - 3 comments

#19 - feat: Plugin Architecture

Pull Request - State: closed - Opened by timwiggin 11 months ago

#18 - vpt HPC execution

Issue - State: open - Opened by josemq 11 months ago - 1 comment

#17 - Polygon units for creating a mask

Issue - State: closed - Opened by pakiessling 12 months ago

#16 - Custom cell segmentation

Issue - State: open - Opened by vdsukhov 12 months ago - 2 comments

#15 - Compute the intensity of sequential genes after cell re-segmentation

Issue - State: closed - Opened by Christina-hshi about 1 year ago - 4 comments

#14 - API for assembling experiments

Issue - State: open - Opened by quentinblampey about 1 year ago - 2 comments

#13 - Run-segmentation ​stops after run-segmentation-on-tile​

Issue - State: closed - Opened by pakiessling about 1 year ago - 4 comments

#12 - Using the tool with non-cellpose/watershed segmentation algorithm

Issue - State: closed - Opened by pakiessling about 1 year ago - 2 comments

#11 - How are cell segmented across tiles and z-planes?

Issue - State: closed - Opened by pakiessling about 1 year ago - 2 comments

#10 - fix: Bug fix for update-vzg temp directory

Pull Request - State: closed - Opened by timwiggin about 1 year ago

#9 - Meaning of Segmentation fault: 11

Issue - State: open - Opened by munizmom about 1 year ago - 1 comment

#8 - update-vzg fails when specifying temp-path

Issue - State: open - Opened by jhkliu42 over 1 year ago - 1 comment

#6 - CellposeSegParameters.__init__() missing 2 required positional arguments

Issue - State: closed - Opened by mbernste over 1 year ago - 2 comments

#5 - Unable to install on M1 chip

Issue - State: open - Opened by quentinblampey over 1 year ago - 3 comments

#4 - unable to run on test dataset

Issue - State: closed - Opened by ucagenomix over 1 year ago - 1 comment

#3 - chore: Remove push to TestPyPI from GHA

Pull Request - State: closed - Opened by timwiggin over 1 year ago

#2 - feat: Initial vpt release

Pull Request - State: closed - Opened by timwiggin over 1 year ago

#1 - Update build command and runner version

Pull Request - State: closed - Opened by timwiggin over 1 year ago