dcjones/proseg issues and pull requests

#48 - Xenium Analyzer V3.x

Issue - State: closed - Opened by psl-schaefer 11 days ago - 2 comments

#47 - ProSeg custom parallel computing

Issue - State: open - Opened by ConstensouxAlexis about 1 month ago

#46 - Xenium 5K Proseg2 output questions

Issue - State: open - Opened by nihalasalem about 2 months ago - 2 comments

#45 - Cell Type Fusions

Issue - State: open - Opened by DarioS 2 months ago - 1 comment

#44 - CosMx data for cell segmentation

Issue - State: closed - Opened by zzy737 2 months ago

#43 - Running re-segmentation using proseg for merscope datasets but want to update .VZG file for vizgen visualizer

Issue - State: closed - Opened by KunHHE 3 months ago - 1 comment

#43 - Running re-segmentation using proseg for merscope datasets but want to update .VZG file for vizgen visualizer

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

#42 - Issue running proseg: assertion failed: end <= axis_len

Issue - State: closed - Opened by kbestak 3 months ago - 9 comments

#41 - Errors related to rust sorting

Issue - State: closed - Opened by RitaRuoxinLi 3 months ago - 4 comments

#40 - missing pixel inside of cell polygons

Issue - State: open - Opened by Bo-UT 4 months ago

#39 - CosMx flat file changes?

Issue - State: open - Opened by kescobo 4 months ago - 2 comments

#38 - Import fails with xeniumranger 3

Issue - State: open - Opened by asmitaL99 4 months ago - 1 comment

#37 - Imaging Mass Cytometry is Unsupported

Issue - State: open - Opened by DarioS 5 months ago - 1 comment

#36 - How does Proseg use information of DAPI/Nuclear

Issue - State: open - Opened by wuwenrui555 5 months ago - 2 comments

#35 - Compatibility with squidpy?

Issue - State: open - Opened by jamesboot 5 months ago - 2 comments

#34 - MERSCOPE Default Config

Issue - State: closed - Opened by marsdenl 5 months ago - 15 comments

#33 - Proseg crashes or generates poor segmentation with Xenium 5k, CosMx 6k, etc

Issue - State: open - Opened by yihming 5 months ago - 25 comments

#32 - Thread panicked with z_prob_sum.is_finite() assertion failure

Issue - State: closed - Opened by yihming 5 months ago - 1 comment

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

Issue - State: closed - Opened by devianggr 5 months ago - 5 comments

#30 - missing gene-column error fix

Pull Request - State: closed - Opened by colganwi 5 months ago - 1 comment

#29 - Proseg fails to read any transcripts from some .csv.gz files

Issue - State: open - Opened by GBeattie 7 months ago - 7 comments

#28 - Presence of low counts squares

Issue - State: open - Opened by guigir 7 months ago - 1 comment

#27 - Visualising polygons

Issue - State: closed - Opened by GBeattie 7 months ago - 2 comments

#26 - Bug, dropping FOVs in polygons

Issue - State: closed - Opened by roanvanscheppingen 7 months ago - 7 comments

#25 - High fraction of cells empty - alert from xeniumranger after import

Issue - State: open - Opened by imran-aifi 7 months ago - 2 comments

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

Issue - State: closed - Opened by imran-aifi 7 months ago - 2 comments

#23 - Overflow Problem in CosMx 6000plex

Issue - State: open - Opened by SanoKyohei 7 months ago - 3 comments

#22 - Problem with export to Xenium Explorer with proseg-to-baysor

Issue - State: closed - Opened by j-bac 8 months ago - 1 comment

#21 - About spurious coexpression metric for CosMx data

Issue - State: closed - Opened by yihming 8 months ago - 2 comments

#20 - Possible performance issue on CosMx data

Issue - State: open - Opened by yihming 8 months ago - 4 comments

#19 - Meaning of volume in cell-metadata output

Issue - State: closed - Opened by wuwenrui555 8 months ago - 2 comments

#18 - Shifting centroids / originals not reported

Issue - State: open - Opened by roanvanscheppingen 8 months ago - 1 comment

#17 - Cell information not transferred

Issue - State: open - Opened by roanvanscheppingen 8 months ago - 1 comment

#16 - Populuation of cell_metadata is not exactly the same

Issue - State: open - Opened by roanvanscheppingen 8 months ago - 2 comments

#15 - Different number of transcripts read

Issue - State: closed - Opened by roanvanscheppingen 8 months ago

#14 - stitch-cosmx.jl is not working

Issue - State: open - Opened by roanvanscheppingen 8 months ago - 3 comments

#13 - plot polygons without overlap

Issue - State: closed - Opened by Bo-UT 8 months ago - 2 comments

#12 - Kernel panic when writing output to disk

Issue - State: closed - Opened by canergen 8 months ago - 7 comments

#11 - converting proseg output into xenium ranger compatible format distorted data

Issue - State: open - Opened by diala-ar 9 months ago - 5 comments

#10 - Question about output format

Issue - State: closed - Opened by SanoKyohei 9 months ago - 2 comments

#9 - Perimeter-bound and other options

Issue - State: closed - Opened by pakiessling 9 months ago - 2 comments

#8 - protein info from CosMX

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

#7 - Prior cell segmentation

Issue - State: closed - Opened by Bo-UT 9 months ago - 2 comments

#6 - Missing FOV column in proseg output files

Issue - State: closed - Opened by PietroAndrei 9 months ago - 2 comments

#5 - Compatibility with MERSCOPE outputs

Issue - State: closed - Opened by davidhbrann 9 months ago - 2 comments

#4 - Downstream cell-type calling Cosmx

Issue - State: closed - Opened by roanvanscheppingen 9 months ago - 2 comments

GitHub / dcjones/proseg issues and pull requests