https://github.com/blahah/ebseq
clone of EBSeq from bioconductor - beware experimental features
https://github.com/blahah/ebseq
Last synced: 4 months ago
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clone of EBSeq from bioconductor - beware experimental features
- Host: GitHub
- URL: https://github.com/blahah/ebseq
- Owner: blahah
- Created: 2014-04-01T14:33:24.000Z (about 11 years ago)
- Default Branch: master
- Last Pushed: 2014-04-04T13:52:29.000Z (about 11 years ago)
- Last Synced: 2024-12-27T19:13:31.854Z (5 months ago)
- Language: R
- Size: 1.13 MB
- Stars: 1
- Watchers: 3
- Forks: 0
- Open Issues: 0
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Metadata Files:
- Readme: README.md
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README
EBSeq (experimental)
=====
Clone of EBSeq from [bioconductor](http://www.bioconductor.org/packages/devel/bioc/html/EBSeq.html) with **experimental features**. Please use the original EBSeq unless you specifically need one of the experimental features being developed here.
## Experimental features
1. Allow hyperparameters (`alpha`, `beta` and `P`) to be fixed, rather than optimised by maximum likelihood with expectation maximisation. This drastically reduces runtime for complex experiments (e.g for 6 conditions \* 3 samples, runtime reduces from 3 days to 35 seconds). **BEWARE**: there may be a corresponding decrease in the accuracy of the fitted model.
## Credits
Most of the code is (c) [Ning Leng](http://www.biostat.wisc.edu/~ningleng/), with modifications by [Richard Smith-Unna](https://github.com/Blahah).
EBSeq is *free software* under the [Artistic License 2.0](http://opensource.org/licenses/Artistic-2.0)