query <- GDCquery(project = "TARGET-AML", data.category = "Transcriptome Profiling", data.type = "Gene Expression Quantification", workflow.type = "HTSeq - Counts")
# Gene expression aligned against hg38query <- GDCquery(project = "TCGA-GBM", data.category = "Transcriptome Profiling", data.type = "Gene Expression Quantification", workflow.type = "HTSeq - FPKM-UQ", barcode = c("TCGA-14-0736-02A-01R-2005-01", "TCGA-06-0211-02A-02R-2005-01"))
query <- GDCquery(project = "TCGA-GBM", data.category = "Transcriptome Profiling", data.type = "Gene Expression Quantification", workflow.type = "HTSeq - FPKM")
query = GDCquery(project = "TCGA-COAD", data.category = "Transcriptome Profiling", data.type = "miRNA Expression Quantification") query = GDCquery(project = "TARGET-AML", data.category = "Transcriptome Profiling", data.type = "miRNA Expression Quantification", workflow.type = "BCGSC miRNA Profiling"
# Using sample type to get only Primary solid Tumor samples and Solid Tissue Normalquery.mirna <- GDCquery(project = "TCGA-ACC", data.category = "Transcriptome Profiling", data.type = "miRNA Expression Quantification", sample.type = c("Primary solid Tumor","Solid Tissue Normal"))
# All DNA methylation data for TCGA-GBM and TCGA-GBMquery.met <- GDCquery(project = c("TCGA-GBM","TCGA-LGG"), legacy = TRUE, data.category = "DNA methylation", platform = c("Illumina Human Methylation 450", "Illumina Human Methylation 27"))
query.met <- GDCquery(project = c("TCGA-GBM"), legacy = TRUE, data.category = "DNA methylation", platform = c("Illumina Human Methylation 450"))
# Searching idat file for DNA methylationquery <- GDCquery(project = "TCGA-OV", data.category = "Raw microarray data", data.type = "Raw intensities", experimental.strategy = "Methylation array", legacy = TRUE, file.type = ".idat", platform = "Illumina Human Methylation 450")
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