texmexseq: Treatment Effect eXplorer for Microbial Ecology eXperiments (using Sequence Counts)

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Analysis and visualization of community dynamics in microbial ecology experiments (that use sequence count data) using the truncated Poisson lognormal distribution.

Author
Scott Olesen
Date of publication
2016-07-25 20:33:40
Maintainer
Scott Olesen <swo@mit.edu>
License
GPL-3
Version
0.3
URLs

View on CRAN

Man pages

dpoilog
probability density function for the Poisson lognormal...
poilogMLE
maximum likelihood estimation for the Poisson lognormal
ppplot
PP plot for Poisson lognormal distribution
quad-table
Create and plot "quads" of samples
texmex-fit
wrapper for fitting the Poisson lognormal
texmexseq-package
Treatment Effect eXplorer for Microbial Ecology eXperiments
z-transform-sample
transform from raw counts to Poisson-lognormal-based metrics

Files in this package

texmexseq
texmexseq/inst
texmexseq/inst/extdata
texmexseq/inst/extdata/otus.dat
texmexseq/tests
texmexseq/tests/testthat.R
texmexseq/tests/testthat
texmexseq/tests/testthat/test-mle.R
texmexseq/tests/testthat/test-dpoilog.R
texmexseq/tests/testthat/test-rpoilog.R
texmexseq/tests/testthat/otus.dat
texmexseq/tests/testthat/test-table.R
texmexseq/src
texmexseq/src/texmexseq_s_cint.c
texmexseq/NAMESPACE
texmexseq/demo
texmexseq/demo/00Index
texmexseq/demo/demo.R
texmexseq/R
texmexseq/R/session.R
texmexseq/R/texmexseq.R
texmexseq/README.md
texmexseq/MD5
texmexseq/DESCRIPTION
texmexseq/man
texmexseq/man/quad-table.Rd
texmexseq/man/ppplot.Rd
texmexseq/man/texmexseq-package.Rd
texmexseq/man/poilogMLE.Rd
texmexseq/man/z-transform-sample.Rd
texmexseq/man/texmex-fit.Rd
texmexseq/man/dpoilog.Rd