Files in waldronlab/MultiAssayExperiment.TCGA
Pipeline for the integration of multi-omics experiments in Bioconductor

.Rbuildignore
.gitignore
DESCRIPTION
MAEOinfo.csv
NAMESPACE
R/buildMultiAssayExperiments.R R/data.R R/dataDirectories.R R/getDiseaseCodes.R R/loadData.R R/saveMapData.R R/saveNupload.R R/saveRTCGAdata.R R/updateInfo.R R/utils.R README.md data-raw/ExcelPreprocess/OV_preproc.R data-raw/ExcelPreprocess/SKCM_preproc.R data-raw/ExcelPreprocess/excel_BLCA_preproc.R data-raw/ExcelPreprocess/excel_KICH_preproc.R data-raw/ExcelPreprocess/excel_KIRP_preproc.R data-raw/ExcelPreprocess/excel_LAML_preproc.R data-raw/ExcelPreprocess/excel_LGGGBM_preproc.R data-raw/ExcelPreprocess/excel_LUAD_preproc.R data-raw/ExcelPreprocess/excel_LUSC_preproc.R data-raw/ExcelPreprocess/excel_SKCM_preproc.R data-raw/ExcelPreprocess/excel_position.R data-raw/ToolboxClinNames.R data-raw/brcaMerge.R data-raw/checkClinicalCuration.R data-raw/checkMeta.R data-raw/checkSubtypeCuration.R data-raw/cleanDuplicates.R data-raw/cleanMerged.R data-raw/codesCurated.R data-raw/createSubtypeMaps.R data-raw/downloadClinicalDrop.R data-raw/downloadExtraClinical.R data-raw/downloadSubtypeDrop.R data-raw/getClinicalData.R data-raw/mergeClinicalCuration.R data-raw/mergeSubtypeCuration.R data-raw/merge_curated_LW.R data-raw/modify_se_links.R data-raw/rename_methyl_s3.R data-raw/rm_noRunDate.R data-raw/rm_old_methyl.R data-raw/subtypeMaps.R
data-raw/subtypes_curation.txt
data-raw/writeSubtypeCuration.R
data/curationAvailable.rda
exec/getRawData.sh
exec/pullRDS.sh
exec/runPipeline.sh
exec/start.sh
exec/updateObj.sh
inst/extdata/clinicalColnames.rds
inst/scripts/checkMultipleMerges.R inst/scripts/downloadDropbox.R inst/scripts/getRawData.R inst/scripts/metadataUpdate.R inst/scripts/renameRDS.R inst/scripts/updateMetaMAE.R inst/scripts/updateRTCGA.R man/buildMultiAssayExperiments.Rd man/curationAvailable.Rd man/dataDirectories.Rd man/getDiseaseCodes.Rd man/loadData.Rd man/saveNupload.Rd man/saveRTCGAdata.Rd man/updateInfo.Rd vignettes/MultiAssayPipeline.Rmd
waldronlab/MultiAssayExperiment.TCGA documentation built on April 24, 2019, 5:47 p.m.