ClusterMap

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optimization of segmentation

1

Hi, i we are using very large images, and i noticed that the slowest part seems to be the segmentation. i also noticed only 1/2 cores are being utilized through...

WeissShahaf

Detailed explanation about plot_with_dapi parameter

2

Hi @heihaizhengdong , I'd like to know what's the meaning of `plot_with_dapi` in most clustermap functions? In my opinion, if it is set to `False` then the spots overlapping with...

rocketeer1998

Questions and Enhancements about ClusterMap

2

Hello @heihaizhengdong , I’m very interested in ClusterMap. I’d like to ask several questions which are crucial to improving ClusterMap # Questions 1. Is the position of the centroid determined...

rocketeer1998

how to handle empty tiles

3

Hi, the images from my spatial transcriptomics data don't fill the entire image so we I split up the image into smaller tiles I get an error that there are...

mkunst23

Hi Thanks for the package. I encountered a weird problem. I started from the very beginning by running conda env create -f environment.yml, but I got an error that says...

Yifan-debug

Hi, I wonder if you can provide some guidance/tutorial how to best apply ClusterMap to MERFISH data. Would be highly appreciated. Best, Simon

simonmfr