THG451

sc.read_csv - 'ValueError: could not convert string to float'

1

- [x] I have checked that this issue has not already been reported. - [x] I have confirmed this bug exists on the latest version of scanpy. - [ ]...

Using Tangram with MERFISH and visualizing

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Hi, I'm working on using Tangram with my snRNA-seq data with MERFISH. How do I visualize the cell types in space ? I've tried using `tg.plot_cell_annotation_sc` but that does not...

Question - distance measurements

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Hi @giovp and @LucaMarconato, I'm new to spatialdata and thinking about using it. Just wanted to know - does spatialdata have a way to take distance measurements from one point...

- [x] I have checked that this issue has not already been reported. - [x] I have confirmed this bug exists on the latest version of scanpy. - [ ]...

How to preprocess scATAC-seq data using pycisTopic

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Hi @SeppeDeWinter , In relation to preprocessing with pycisTopic, do we have to do all the steps in https://pycistopic.readthedocs.io/en/latest/notebooks/human_cerebellum.html# or there a particular point we stop? Do we stop after...

Hi @SeppeDeWinter and @cbravo93 , I've using pycistopic and going through the tutorial in full in order to prepare my scATAC-seq data for SCENIC+ however I keep coming up against...