Baysor

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Error while estimating local colours

1

Hi all, I have used baysor with a pipeline for a couple of months without problems, but today I ran it on some new samples and I ran into an...

gargerd

Missing Transcript Plots with Preview

1

Hello! My first time posting so my apoligies if I am missing some information. I am using `baysor preview` with V0.6.2. The code works but then I get an error...

matthewcormier95

Hello, I have been trying to install Baysor to function with Julia with several different versions of Julia without success. I end up with the same error code. My latest...

gretajuu

Running 3D Segmentation

3

I am trying to obtain a 3D segmentation result from what I believe is the way to do so. I am not using `PRIOR_SEGMENTATION` in this run. 1. Specify `z`...

NickDiNapoli

Clarification on 'Warning: To many values of z. Using 2D polygons'

3

Hello, I'm running baysor v0.6.2 to get a 3D segmentation for CosMx data, where I provide as prior the cells identified by CosMx. I am getting the below warning and...

e-manduchi

Hi, I am wondering why my command is not producing a loom output for an ncv run. Instead its giving me a .csv file instead. I am running the command...

dr-sayyadhury

add more channel

1

Dear Baysor developers, Is there a way/option to include multiple channels (not just the DAPI)? Best, Andy

andynkili

Memory usage with huge datasets

6

Hi, Thank you so much for providing Baysor. I recently updated my installation to version 0.6.2, and it is running great with Julia 1.9. In our lab, we have recently...

maximilian-heeg

Hi - I was able to get the latest docker version to run on my laptop, but only if I went into the directory where the datafiles existed. When I...

pmaye

Hi there, I am working on creating a converter from Baysor output and I notice that a small percentage of Baysor .geojson output contains less than 4 coordinates and is...

pakiessling