biobroom: Turn Bioconductor objects into tidy data frames

This package contains methods for converting standard objects constructed by bioinformatics packages, especially those in Bioconductor, and converting them to tidy data. It thus serves as a complement to the broom package, and follows the same the tidy, augment, glance division of tidying methods. Tidying data makes it easy to recombine, reshape and visualize bioinformatics analyses.

AuthorAndrew J. Bass, David G. Robinson, Steve Lianoglou, Emily Nelson, John D. Storey, with contributions from Laurent Gatto
Date of publicationNone
MaintainerJohn D. Storey <jstorey@princeton.edu> and Andrew J. Bass <ajbass@princeton.edu>
LicenseLGPL
Version1.6.0
https://github.com/StoreyLab/biobroom

View on Bioconductor

Functions

augment.deSet Man page
augment.DGEList Man page
augment.MArrayLM Man page
augment.qvalue Man page
augment_sva Man page
biobroom Man page
biobroom-package Man page
DESeq2_tidiers Man page
edgeR_tidiers Man page
ExpressionSet_tidiers Man page
glance.deSet Man page
glance.DGEExact Man page
glance.GRanges Man page
glance.GRangesList Man page
glance.list Man page
glance.MArrayLM Man page
glance.qvalue Man page
glance_sva Man page
hammer Man page
limma_tidiers Man page
list_tidiers Man page
MSnSet_tidiers Man page
qvalue_tidiers Man page
SummarizedExperiment_tidiers Man page
tidy.DESeqDataSet Man page
tidy.DESeqResults Man page
tidy.deSet Man page
tidy.DGEExact Man page
tidy.DGEList Man page
tidy.EList Man page
tidy.ExpressionSet Man page
tidy.GRanges Man page
tidy.GRangesList Man page
tidy.list Man page
tidy.MAList Man page
tidy.MArrayLM Man page
tidy.MSnSet Man page
tidy.qvalue Man page
tidy.RangedSummarizedExperiment Man page
tidy_sva Man page

Files

biobroom/DESCRIPTION
biobroom/NAMESPACE
biobroom/NEWS
biobroom/R
biobroom/R/DESeq2_tidiers.R biobroom/R/ExpressionSet_tidiers.R biobroom/R/GRanges_tidiers.R biobroom/R/MSnSet_tidiers.R biobroom/R/SummarizedExperiment_tidiers.R biobroom/R/biobroom.R biobroom/R/edgeR_tidiers.R biobroom/R/edge_tidiers.R biobroom/R/hammer-data.R biobroom/R/limma_tidiers.R biobroom/R/list_tidiers.R biobroom/R/qvalue_tidiers.R biobroom/R/sva_tidiers.R biobroom/R/testing_helpers.R biobroom/R/utilities.R
biobroom/README.md
biobroom/build
biobroom/build/vignette.rds
biobroom/data
biobroom/data/hammer.rda
biobroom/inst
biobroom/inst/doc
biobroom/inst/doc/biobroom_vignette.R
biobroom/inst/doc/biobroom_vignette.Rmd
biobroom/inst/doc/biobroom_vignette.html
biobroom/man
biobroom/man/DESeq2_tidiers.Rd biobroom/man/ExpressionSet_tidiers.Rd biobroom/man/GRanges_tidiers.Rd biobroom/man/MSnSet_tidiers.Rd biobroom/man/SummarizedExperiment_tidiers.Rd biobroom/man/biobroom.Rd biobroom/man/edgeR_tidiers.Rd biobroom/man/edge_tidiers.Rd biobroom/man/hammer.Rd biobroom/man/limma_tidiers.Rd biobroom/man/list_tidiers.Rd biobroom/man/qvalue_tidiers.Rd biobroom/man/sva_tidiers.Rd
biobroom/tests
biobroom/tests/testthat
biobroom/tests/testthat.R
biobroom/tests/testthat/test-DESeq2_tidiers.R
biobroom/tests/testthat/test-ExpressionSet.R
biobroom/tests/testthat/test-edgeR_tidiers.R
biobroom/tests/testthat/test-limma_tidiers.R
biobroom/tests/testthat/test-testing_helpers.R
biobroom/vignettes
biobroom/vignettes/biobroom_vignette.Rmd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.