dispersion algorithm
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Description
Hi,
It is reported "Dispersion parameters are first estimated independently for each gene by fitting a negative binomial generalized linear model (GLM)" in pydeseq2 bioinformatics paper. Since I am not a statistician, I cannot understand the complicated statistics principle under pydeseq2 and DEA. However, I wanna know which group of samples are used to get dispersion, for example, if the control group contains three samples and the treatment group contains another three samples. Which samples will be used to calculate the dispersion ?
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Research direction
The issue names no files, tests, or entry points. Read the PyDESeq2 dispersion-estimation documentation and the referenced bioinformatics paper first, then determine whether the answer should be documented; done means clearly explaining which samples contribute to dispersion estimation for the stated two-group example.
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Assessment
- Tech stack
- python
- Domain
- data
- Issue type
- Documentation
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100