rtk: Rarefaction Tool Kit

Allows normalization of very large abundance tables, from metagenomics applications or other sources, to an equal depth. Additionally diversity measures, such as richness, Shannon diversity, chao1, chao2 and others are calculated on the fly. The results may be plotted using the provided plotting functions.

AuthorPaul Saary, Falk Hildebrand
Date of publication2016-08-10 10:06:58
MaintainerPaul Saary <rtk@paulsaary.de>
LicenseGPL (>= 2)
Version0.2.2

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Files in this package

rtk
rtk/tests
rtk/tests/testthat.R
rtk/tests/testthat
rtk/tests/testthat/test_rare.R
rtk/src
rtk/src/Makevars
rtk/src/Rwrapper.cpp
rtk/src/ClStr2Mat.cpp
rtk/src/Matrix.cpp
rtk/src/Math.h
rtk/src/Matrix.h
rtk/src/RRare.h
rtk/src/ClStr2Mat.h
rtk/src/RRare.cpp
rtk/src/IO.cpp
rtk/src/Makevars.win
rtk/src/RcppExports.cpp
rtk/src/Math.cpp
rtk/src/Rwrapper.h
rtk/src/IO.h
rtk/NAMESPACE
rtk/R
rtk/R/rarefaction.R rtk/R/rarefaction.plots.R rtk/R/RcppExports.R rtk/R/collectorscurve.R
rtk/README.md
rtk/MD5
rtk/build
rtk/build/partial.rdb
rtk/DESCRIPTION
rtk/man
rtk/man/collectors.curve.Rd rtk/man/rtk-package.Rd rtk/man/rtk.Rd rtk/man/plot.rarefaction.Rd rtk/man/get.diversity.Rd

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