Samples.miRSeq: Retrieve miRSeq data.

Description Usage Arguments

View source: R/Samples.miRSeq.R

Description

This service returns sample-level log2 miRSeq expression values. Results may be filtered by miR, cohort, barcode, sample type or Firehose preprocessing tool, but at least one miR must be supplied.

Usage

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Samples.miRSeq(format = "json", mir = "", cohort = "",
  tcga_participant_barcode = "", tool = "miRseq_Mature_Preprocess",
  sample_type = "", page = "1", page_size = "250", sort_by = "cohort")

Arguments

format

Format of result. Default value is json. While json,tsv,csv are available.

mir

Comma separated list of miR names (e.g. hsa-let-7b-5p,hsa-let-7a-1). Multiple values are allowed .

cohort

Narrow search to one or more TCGA disease cohorts from the scrollable list. Multiple values are allowed ACC,BLCA,BRCA,CESC,CHOL,COAD,COADREAD,DLBC,ESCA,FPPP,GBM,GBMLGG,HNSC,KICH,KIPAN,KIRC,KIRP,LAML,LGG,LIHC,LUAD,LUSC,MESO,OV,PAAD,PCPG,PRAD,READ,SARC,SKCM,STAD,STES,TGCT,THCA,THYM,UCEC,UCS,UVM.

tcga_participant_barcode

Comma separated list of TCGA participant barcodes (e.g. TCGA-GF-A4EO). Multiple values are allowed .

tool

Narrow search to include only data/results produced by the selected Firehose tool. Multiple values are allowed miRseq_Mature_Preprocess,miRseq_Preprocess. Default value is miRseq_Mature_Preprocess.

sample_type

Narrow search to one or more TCGA sample types from the scrollable list. Multiple values are allowed NB,NBC,NBM,NT,TAM,TAP,TB,TM,TP,TR.

page

Which page (slice) of entire results set should be returned. Multiple values are allowed . Default value is 1.

page_size

Number of records per page of results. Max is 2000. Multiple values are allowed . Default value is 250.

sort_by

Which column in the results should be used for sorting paginated results? Default value is cohort. While tcga_participant_barcode,cohort,tool,mir,sample_type are available.


mariodeng/FirebrowseR documentation built on May 21, 2019, 11:46 a.m.