CELLector.cna_look_up: Decoding identifers of chromosomal regions of recurrent Copy...

In najha/CELLector: Genomics guided selection of cancer cell lines

Decoding identifers of chromosomal regions of recurrent Copy Number Alterations

Description

This functions shows the annotation for a chromosomal region of recurrent copy number alterations (RACS) as defined in [1].

Usage

CELLector.cna_look_up(cna_ID, cnaId_decode, TCGALabel)

Arguments

cna_ID	A string containin the RACS identifier. Full list available in the CELLector.CFEs object.
cnaId_decode	A data frame containing the RACSs' annotation, available in the CELLector.CFEs.CNAid_decode object
TCGALabel	A TCGA label indicating the cancer type under consideration: BLCA, BRCA, COREAD, GBM, HNSC, KIRC, LAML, LGG, LUAD, LUSC, OV, PRAD, SKCM, STAD, THCA, UCEC available in this version.

Value

A data frame with a single line containing the annotation of the RACS indicated in input.

Author(s)

Hanna Najgebauer and Francesco Iorio

References

[1] Iorio, F. et al. A Landscape of Pharmacogenomic Interactions in Cancer. Cell 166, 740–754 (2016).

See Also

CELLector.CFEs,

CELLector.CFEs.CNAid_decode

Examples

data(CELLector.CFEs.CNAid_decode)
CELLector.cna_look_up(cna_ID='cna26',
                      cnaId_decode = CELLector.CFEs.CNAid_decode,
                      TCGALabel = 'BRCA')

najha/CELLector documentation built on Feb. 8, 2023, 5:35 a.m.