Question: metagenomeSeq: role for fitLogNormal?
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gravatar for handibles
2.1 years ago by
handibles10
handibles10 wrote:

fitLogNormal is based on the MetaStats package maintained by the MetagenomeSeq developers. It is not clear what this permutation T-Test provides that is not provided by fitFeatureModel with a equivalent number of iterations. 

Is this simply the test that fitFeatureModel calls to do its job?

metagenomeseq • 379 views
ADD COMMENTlink modified 2.1 years ago by Joseph Nathaniel Paulson270 • written 2.1 years ago by handibles10
Answer: metagenomeSeq: role for fitLogNormal?
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gravatar for Joseph Nathaniel Paulson
2.1 years ago by
United States
Joseph Nathaniel Paulson270 wrote:

MetagenomeSeq has a number of tests implemented and available for users, including Fisher's exact test for presence / absence of a feature (fitPA) and a measure of the discovery odds (based on # reads) (fitDO).

fitFeatureModel does not call fitLogNormal. fitLogNormal is solely a permutation based t-test on the log-transformed data - this is an expansion to the main test provided by metastats (multiple covariates could not be included in metastats).

ADD COMMENTlink written 2.1 years ago by Joseph Nathaniel Paulson270
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