crossmeta: Cross Platform Meta-Analysis of Microarray Data

Implements cross-platform and cross-species meta-analyses of Affymentrix, Illumina, and Agilent microarray data. This package automates common tasks such as downloading, normalizing, and annotating raw GEO data. A user interface makes it easy to select control and treatment samples for each contrast and study. This input is used for subsequent surrogate variable analysis (models unaccounted sources of variation) and differential expression analysis. Final meta-analysis of differential expression values can include genes measured in only a subset of studies.

AuthorAlex Pickering
Date of publicationNone
MaintainerAlex Pickering <alexvpickering@gmail.com>
LicenseMIT + file LICENSE
Version1.0.1

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Files in this package

crossmeta/DESCRIPTION
crossmeta/LICENSE
crossmeta/NAMESPACE
crossmeta/R
crossmeta/R/diff_utils.R crossmeta/R/load_affy.R crossmeta/R/load_agil.R crossmeta/R/load_illum.R crossmeta/R/load_utils.R crossmeta/R/meta_utils.R crossmeta/R/selection_utils.R crossmeta/R/setup_prev.R
crossmeta/R/sysdata.rda
crossmeta/README.md
crossmeta/build
crossmeta/build/vignette.rds
crossmeta/inst
crossmeta/inst/doc
crossmeta/inst/doc/crossmeta-vignette.R
crossmeta/inst/doc/crossmeta-vignette.Rmd
crossmeta/inst/doc/crossmeta-vignette.html
crossmeta/man
crossmeta/man/contribute.Rd crossmeta/man/diff_expr.Rd crossmeta/man/es_meta.Rd crossmeta/man/get_raw.Rd crossmeta/man/load_diff.Rd crossmeta/man/load_raw.Rd crossmeta/man/open_raw_illum.Rd crossmeta/man/setup_prev.Rd crossmeta/man/symbol_annot.Rd
crossmeta/tests
crossmeta/tests/testthat
crossmeta/tests/testthat.R
crossmeta/tests/testthat/test-all.R
crossmeta/vignettes
crossmeta/vignettes/crossmeta-vignette.Rmd

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

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