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---
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name: Bug report
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about: Cell2location doesn’t do what it should? Please help us fix it!
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title: ''
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labels: bug
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assignees: ''
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---
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- [ ] I have confirmed this bug exists on the latest version of cell2location. See https://github.com/BayraktarLab/cell2location#installation
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- [ ] I follow the instructions from the [scvi-tools tutorial](https://cell2location.readthedocs.io/en/latest/notebooks/cell2location_tutorial.html).
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---
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**Note**: Please read [this guide](https://matthewrocklin.com/blog/work/2018/02/28/minimal-bug-reports) detailing how to provide the necessary information for us to reproduce your bug.
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### Minimal code sample (that we can run without your data, using public data)
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```python
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# Your code here
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```
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```pytb
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[Paste the error output produced by the above code here]
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```
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.github/ISSUE_TEMPLATE/config.yml

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blank_issues_enabled: false
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contact_links:
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- name: Cell2location Community Discussions
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url: https://github.com/BayraktarLab/cell2location/discussions
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about: Ask how to solve your problem using cell2location.
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---
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name: Enhancement request
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about: Anything you’d like to see in cell2location?
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title: ''
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labels: enhancement
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assignees: ''
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---
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<!-- Please describe your feature you would like to see below: -->
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...

.github/ISSUE_TEMPLATE/question.md

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---
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name: Usage Question
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about: Ask how to solve your problem using cell2location.
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title: ''
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labels: question
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assignees: ''
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---
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### Problem
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<!-- Please describe your problem below: -->
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...
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- [ ] I follow the instructions from the [cell2location tutorial (using on scvi-tools)](https://cell2location.readthedocs.io/en/latest/notebooks/cell2location_tutorial.html).
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- [ ] I have adjusted required hyperparameters to my dataset and tissue `N_cells_per_location` and `detection_alpha`.
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- [ ] I have provided 10X reaction/inlet as `batch_key` for reference NB regression.
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- [ ] I have checked [Cell2location Community Forum](https://github.com/BayraktarLab/cell2location/discussions), [scvi-tools forum](https://discourse.scvi-tools.org/) and did not find a solution
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### Description of the data input and hyperparameters
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<!-- Please briefly describe your : -->
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...
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<!-- Please briefly describe your spatial data: -->
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...
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#### Single cell reference data: number of cells, number of cell types, number of genes
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<!-- Please add this info: -->
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...
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#### Single cell reference data: technology type (e.g. mix of 10X 3' and 5')
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<!-- Please add this info: -->
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...
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#### Spatial data: number of locations numbers, technology type (e.g. Visium, ISS, Nanostring WTA)
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<!-- Please add this info: -->
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