AlexsLemonade / AlexsLemonade/refinebio
Dataset Request SRP149884
- Dominant language
- Python
- Stars
- 135
- Forks
- 21
- PR merge metrics
- No merged PRs in 30d
Description
### Context
A user requested [SRP149884](https://www.refine.bio/experiments/SRP149884/non-inflammatory-tumor-microenvironment-of-diffuse-intrinsic-pontine-glioma-dipg).
### Problem or idea
It looks like Salmon timed out on a good number of the samples.
### Solution or next step
Try running it locally. This could be related to the issue I fixed where the number of reads wasn't being identified correctly.
Contributor guide
No contributing guide indexed for this repository
Research direction
Start by attempting to run dataset SRP149884 locally with Salmon and record which samples time out. Compare the behavior with the earlier fix for incorrect read-count identification; done means determining whether that fix resolves the failures or confirming a separate cause.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 30/100