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DESCRIPTION
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DESCRIPTION
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Package: nychanesmicrobiome
Type: Package
Title: Analysis of the NYC-HANES Microbiome Specimens
Version: 0.1.2
Author: Audrey Renson <audrey.o.renson@gmail.com>
Francesco Beghini <francesco.beghini@unitn.it>
Levi Waldron <lwaldron.research@gmail.com>
Maintainer: Audrey Renson <audrey.o.renson@gmail.com>
Description: Reproduces analysis from Audrey Renson's and Francesco Beghini's manuscripts.
License: Artistic-2.0
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.2.3
Depends:
Biobase,
phyloseq,
lsr
Imports:
sas7bdat,
kableExtra,
ggplot2,
IHW,
dplyr,
epitools,
statmod,
DESeq2,
edgeR,
GSVA,
EnrichmentBrowser,
magrittr,
dplyr,
reshape2,
vegan
Suggests: knitr,
rmarkdown,
BiocStyle
VignetteBuilder: knitr
Collate:
'abundance_plots.R'
'pilot_selection.R'
'annotateFactors.R'
'diversity_plots.R'
'edgeR_dotplots.R'
'edgeR_tileplots.R'
'get_edgeR_results.R'
'loadQiimeData.R'
'prettytable_functions.R'
URL: http://waldronlab.io/nychanesmicrobiome/