TCGAquery_SampleTypes: Retrieve multiple tissue types not from the same patients.
In TCGAbiolinks: TCGAbiolinks: An R/Bioconductor package for integrative analysis with GDC data
Description
Usage
Arguments
Value
Examples
Description
TCGAquery_SampleTypes for a given list of samples and types,
return the union of samples that are from theses type.
Usage
1
TCGAquery_SampleTypes(barcode, typesample)
Arguments
barcode
is a list of samples as TCGA barcodes
typesample
a character vector indicating tissue type to query.
Example:
TP PRIMARY SOLID TUMOR
TR RECURRENT SOLID TUMOR
TB Primary Blood Derived Cancer-Peripheral Blood
TRBM Recurrent Blood Derived Cancer-Bone Marrow
TAP Additional-New Primary
TM Metastatic
TAM Additional Metastatic
THOC Human Tumor Original Cells
TBM Primary Blood Derived Cancer-Bone Marrow
NB Blood Derived Normal
NT Solid Tissue Normal
NBC Buccal Cell Normal
NEBV EBV Immortalized Normal
NBM Bone Marrow Normal
Value
a list of samples / barcode filtered by type sample selected
Examples
1
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9
# selection of normal samples "NT"
barcode <- c("TCGA-B0-4698-01Z-00-DX1","TCGA-CZ-4863-02Z-00-DX1")
# Returns the second barcode
TCGAquery_SampleTypes(barcode,"TR")
# Returns both barcode
TCGAquery_SampleTypes(barcode,c("TR","TP"))
barcode <- c("TARGET-20-PANSBH-14A-02D","TARGET-20-PANSBH-01A-02D",
"TCGA-B0-4698-01Z-00-DX1","TCGA-CZ-4863-02Z-00-DX1")
TCGAquery_SampleTypes(barcode,c("TR","TP"))
TCGAbiolinks documentation built on Nov. 8, 2020, 5:37 p.m.
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Description Usage Arguments Value Examples
Description
TCGAquery_SampleTypes for a given list of samples and types, return the union of samples that are from theses type.
Usage
1 | TCGAquery_SampleTypes(barcode, typesample)
|
Arguments
barcode |
is a list of samples as TCGA barcodes | |||||||||||||||||||||||||||||
typesample |
a character vector indicating tissue type to query. Example:
|
Value
a list of samples / barcode filtered by type sample selected
Examples
1 2 3 4 5 6 7 8 9 | # selection of normal samples "NT"
barcode <- c("TCGA-B0-4698-01Z-00-DX1","TCGA-CZ-4863-02Z-00-DX1")
# Returns the second barcode
TCGAquery_SampleTypes(barcode,"TR")
# Returns both barcode
TCGAquery_SampleTypes(barcode,c("TR","TP"))
barcode <- c("TARGET-20-PANSBH-14A-02D","TARGET-20-PANSBH-01A-02D",
"TCGA-B0-4698-01Z-00-DX1","TCGA-CZ-4863-02Z-00-DX1")
TCGAquery_SampleTypes(barcode,c("TR","TP"))
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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