getGEO_and_folder_in: Download item from the GEO database

In Meiomap/SureTypeSCR: Library for (single-cell) SNP array processing

Description

Downloads metadata (and data) for GEO records specified in x.

Usage

getGEO_and_folder_in(x,download=TRUE)

Arguments

x	GEO record ID
download	boolean flag indicating whether to download the data (TRUE) or just the metadata (FALSE)

Value

Data frame with metadata

Examples

#library(GEOquery)

#gse <- getGEO("GSE19247",GSEMatrix = TRUE)

#samplelist_sperm=as.data.frame(gse$`GSE19247-GPL6985_series_matrix.txt.gz`) %>% 
#  filter((str_detect(cell.type.ch1,'sperm')) & str_detect(cell.amplication.ch1,'MDA')) %>%
#  rownames()  

#metadf_sperm=map_if(samplelist_sperm,function(x) !is.null(x),
#                   function(x) getGEO_and_folder_in(x,download=TRUE))
#metadf_sperm_merged = Reduce(function(...) merge(..., all=T), metadf_sperm)

Meiomap/SureTypeSCR documentation built on Dec. 17, 2021, 3:22 a.m.