quad.table
(Package: texmexseq) :
Create and plot ``quads'' of samples
Pull out a “quad” of samples from a larger data frame, then plot the pairs of samples in the quad against one another.
● Data Source:
CranContrib
● Keywords: design, hplot, manip
● Alias: quad.plot, quad.table
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ppplot
(Package: texmexseq) :
PP plot for Poisson lognormal distribution
Generate a plot showing the quality of the fit of the Poisson lognormal to the data.
● Data Source:
CranContrib
● Keywords: hplot
● Alias: ppplot
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texmexseq-package
(Package: texmexseq) :
Treatment Effect eXplorer for Microbial Ecology eXperiments
Fit OTU count data to the Poisson lognormal distribution to create values that can be compared across control and treatment units in before and after timepoints. Plotting methods for these “quads” of samples.
● Data Source:
CranContrib
● Keywords: package
● Alias: texmexseq, texmexseq-package
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poilogMLE
(Package: texmexseq) :
maximum likelihood estimation for the Poisson lognormal
Fit a set of OTU counts to the Poisson lognormal distribution.
● Data Source:
CranContrib
● Keywords: distribution
● Alias: poilogMLE
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z.transform.sample
(Package: texmexseq) :
transform from raw counts to Poisson-lognormal-based metrics
Functions for transforming raw read counts into rescaled reads (z) and theoretical cumulative distribution function values (f).
● Data Source:
CranContrib
● Keywords: manip
● Alias: f.transform.sample, f.transform.table, z.transform.sample, z.transform.table
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texmex.fit
(Package: texmexseq) :
wrapper for fitting the Poisson lognormal
A nice wrapper for the poilogMLE function.
● Data Source:
CranContrib
● Keywords: distribution
● Alias: texmex.fit
●
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dpoilog
(Package: texmexseq) :
probability density function for the Poisson lognormal distribution
Probability density function for the Poisson lognormal distribution, along with methods for drawing random samples from that distribution and fitting experimental data to that distribution.
● Data Source:
CranContrib
● Keywords: datagen, univar
● Alias: dpoilog, rpoilog
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