dcjones/proseg

Issues

• Proseg crashes or generates poor segmentation with Xenium 5k, CosMx 6k, etc

  #33 opened 4 months ago by yihming
  22

• CosMx flat file changes?

  #39 opened 3 months ago by kescobo
  2

• Import fails with xeniumranger 3

  #38 opened 3 months ago by asmitaL99
  1

• Compatibility with squidpy?

  #35 opened 4 months ago by jamesboot
  2

• Proseg fails to read any transcripts from some .csv.gz files

  #29 opened 5 months ago by GBeattie
  7

• MERSCOPE Default Config

  #34 opened 4 months ago by marsdenl
  9

• Imaging Mass Cytometry is Unsupported

  #37 opened 4 months ago by DarioS
  1

• How does Proseg use information of DAPI/Nuclear

  #36 opened 4 months ago by wuwenrui555
  2

• Thread panicked with z_prob_sum.is_finite() assertion failure

  #32 opened 4 months ago by yihming
  1

• Proseg-to-baysor ParseError("Error while parsing value transcript_id for column 0 at line 0")

  #31 opened 4 months ago by devianggr
  5

• Populuation of cell_metadata is not exactly the same

  #16 opened 6 months ago by roanvanscheppingen
  2

• About spurious coexpression metric for CosMx data

  #21 opened 4 months ago by yihming
  2

• Different number of transcripts read

  #15 opened 5 months ago by roanvanscheppingen
  0

• plot polygons without overlap

  #13 opened 5 months ago by Bo-UT
  2

• Viewing 2D non-overlapping cell boundaries in Xenium Explorer with proseg-to-baysor

  #24 opened 6 months ago by imran-aifi
  2

• Bug, dropping FOVs in polygons

  #26 opened 5 months ago by roanvanscheppingen
  7

• Visualising polygons

  #27 opened 5 months ago by GBeattie
  2

• Presence of low counts squares

  #28 opened 5 months ago by guigir
  1

• High fraction of cells empty - alert from xeniumranger after import

  #25 opened 6 months ago by imran-aifi
  2

• Possible performance issue on CosMx data

  #20 opened 6 months ago by yihming
  4

• Meaning of volume in cell-metadata output

  #19 opened 6 months ago by wuwenrui555
  2

• Overflow Problem in CosMx 6000plex

  #23 opened 6 months ago by SanoKyohei
  3

• Cell information not transferred

  #17 opened 6 months ago by roanvanscheppingen
  1

• Problem with export to Xenium Explorer with proseg-to-baysor

  #22 opened 6 months ago by j-bac
  1

• Shifting centroids / originals not reported

  #18 opened 6 months ago by roanvanscheppingen
  1

• stitch-cosmx.jl is not working

  #14 opened 7 months ago by roanvanscheppingen
  3

• Kernel panic when writing output to disk

  #12 opened 7 months ago by canergen
  7

• converting proseg output into xenium ranger compatible format distorted data

  #11 opened 7 months ago by diala-ar
  5

• Question about output format

  #10 opened 7 months ago by SanoKyohei
  2

• Perimeter-bound and other options

  #9 opened 8 months ago by pakiessling
  2

• protein info from CosMX

  #8 opened 8 months ago by cstrlln
  1

• Prior cell segmentation

  #7 opened 8 months ago by Bo-UT
  2

• Missing FOV column in proseg output files

  #6 opened 8 months ago by PietroAndrei
  2

• xenium data issue

  #2 opened 8 months ago by williamsdrake
  11

• Compatibility with MERSCOPE outputs

  #5 opened 8 months ago by davidhbrann
  2

• Downstream cell-type calling Cosmx

  #4 opened 8 months ago by roanvanscheppingen
  2

• issue with the stitch-cosmx.jl script

  #3 opened 8 months ago by huayingq1996
  1

• Trouble compiling Proseg

  #1 opened 8 months ago by pakiessling
  1