Analyses.CopyNumber.Genes.Amplified: Retrieve Gistic2 significantly amplified genes results.

Description Usage Arguments

View source: R/Analyses.CopyNumber.Genes.Amplified.R

Description

This service provides access to the Gistic2 amp_genes.conf_99.txt output data. At least 1 gene or cohort must be supplied.

Usage

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Analyses.CopyNumber.Genes.Amplified(format = "json", cohort = "",
  gene = "", q = "", page = "1", page_size = "250",
  sort_by = "cohort")

Arguments

format

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

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.

gene

Comma separated list of gene name(s). Multiple values are allowed .

q

Only return results with Q-value <= given threshold.

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 q,cohort,gene are available.


mariodeng/FirebrowseR documentation built on May 21, 2017, 6:48 p.m.