| Version: | 2023.9.3 |
| License: | GPL-3 |
| Title: | Neuroblastoma Copy Number Profiles |
| Description: | Annotated neuroblastoma copy number profiles, a benchmark data set for change-point detection algorithms, as described by Hocking et al. <doi:10.1186/1471-2105-14-164>. |
| Depends: | R (≥ 3.5) |
| NeedsCompilation: | no |
| Packaged: | 2023-09-03 23:34:54 UTC; tdhock |
| Author: | Toby Dylan Hocking [aut, cre] |
| Maintainer: | Toby Dylan Hocking <toby.hocking@r-project.org> |
| Repository: | CRAN |
| Date/Publication: | 2023-09-04 09:40:02 UTC |
Neuroblastoma copy number profiles and breakpoint annotations
Description
Tumors from patients at the Institut Curie were assayed using array
comparative genomic hybridization.
Their normalized copy number profiles are available
as neuroblastoma$profiles and the breakpoint annotations are available
as neuroblastoma$annotations.
Usage
data(neuroblastoma)Format
A named list of 2 data frames:
profilesA data.frame with one row for each probe, and these variables:
profile.id-
factor: id of copy number profile.
chromosome-
factor: chromosome on which the probe was mapped.
position-
integer: probe was mapped to this position in base pairs.
logratio-
numeric: normalized logratio of the probe, which should be proportional to copy number.
annotationsa data.frame with one row for each annotated region, and these variables:
profile.id-
factor: id of copy number profile.
chromosome-
factor: chromosome of this annotation.
min-
integer: lower limit of this region in base pairs.
max-
integer: upper limit of this region in base pairs.
annotation-
factor: annotation of this region, either
"normal"for no breakpoints or"breakpoint"for at least one breakpoint.
Source
Gudrun Schleiermacher and Isabelle Janoueix-Lerosey, Institut Curie.