sokrypton / sokrypton/ColabFold
"ColabFold v1.5.2-patch: AlphaFold2 using MMseqs2" vs "ColabFold v1.5.2: AlphaFold2 using MMseqs2"
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Description
Previously I used the version without patch (i.e., "ColabFold v1.5.2: AlphaFold2 using MMseqs2") to run the modeling pf the structure of my proteins. The problem is that when I run the modeling starting from the same sequence but using the version "ColabFold v1.5.2-patch: AlphaFold2 using MMseqs2" I obtain different result and thus I am not able to reproduce the data acquired previously.
In addition, even using the same version "ColabFold v1.5.2-patch: AlphaFold2 using MMseqs2" for two runs with the same sequence I obtain two different results.
My questions are:
-
Is there anyway to use again "ColabFold v1.5.2: AlphaFold2 using MMseqs2" version?
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I there a specific parameter to make reproducible two runs starting from the same sequence?
Sorry to bother you and thank you in advance.
Best regards,
Marian Vincenzi
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Research direction
The issue does not name any files, tests, or entry points. Start by comparing the two ColabFold versions and reviewing how repeated runs are configured, then determine whether the requested version and reproducibility behavior can be documented or reproduced.
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Assessment
- Tech stack
- jupyter-notebook
- Domain
- bioinformatics
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100