Vizgen/vizgen-postprocessing
The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
PythonApache-2.0
Issues
- 3
importing segmentation masks
#21 opened by pr4deepr - 0
Catching empty segmentations (Exception)
#36 opened by pr4deepr - 0
- 9
.vzg update- runtime error ('Type')
#28 opened by katielong3768 - 0
- 0
Quantify the average signal of each channel intensity (protein staining or smFISH) inside each cell boundary after segmentation
#30 opened by wanghlv - 4
- 0
json "stain" Mismatch
#29 opened by zhenzuo2 - 2
KeyError: Zlevel when importing parquet file generated from baysor polygon geojson
#27 opened by paularstrpo - 3
cannot use custom cellpose model
#20 opened by pr4deepr - 1
Convert HDF5 to PARQUET
#26 opened by Byronxy - 1
vpt HPC execution
#18 opened by josemq - 0
No Fov information in cell_metadata.csv
#25 opened by anidj - 0
information relative to the data folder
#24 opened by anidj - 0
- 1
Invalid value encountered in intersection
#22 opened by gautam-prab - 0
Polygon units for creating a mask
#17 opened by pakiessling - 2
Custom cell segmentation
#16 opened by vdsukhov - 2
API for assembling experiments
#14 opened by quentinblampey - 4
- 2
- 2
- 1
Meaning of Segmentation fault: 11
#9 opened by munizmom - 1
update-vzg fails when specifying temp-path
#8 opened by jhkliu42 - 2
ValueError: Expected columns {'gene', 'global_z', 'global_x', 'global_y'} were not found in the input-transcripts file.
#7 opened by mbernste - 3
Unable to install on M1 chip
#5 opened by quentinblampey - 2
- 1
unable to run on test dataset
#4 opened by ucagenomix