Different results in manifold topology
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Description
Hi
I have a problem with reproducing my analysis using scanpy 1.4.3. I have used two different machines using the same software version (all dependencies as well), and I keep having different results using the same commands and seed numbers.
In one machine I get this:
and in the other I get this:
Can you recommend which aspects to check? or how to deal with this issue?
Thanks in advance!
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by comparing the two machines' scanpy 1.4.3 environments, dependencies, commands, and seed values, using the screenshots as the reported outputs. There is no source file, test, or reproducible dataset named; done would mean isolating why the same analysis produces different manifold-topology results or documenting the missing reproducibility details.
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Assessment
- Tech stack
- python
- Domain
- bioinformatics, data-visualization
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100