qua {kidpack} | R Documentation |
renal cell cancer raw data
data(qua) data(spotanno) data(hybanno)
qua
is an 8704x4x175
array. Its first dimension are the spots
(probes) on the arrays, its second dimension are four different spot
statistics (fg.green
, bg.green
, fg.red
, bg.red
),
its third dimension are the 175 different arrays.
spotanno
is a data frame with 8704 rows, one for each spot. Its
columns are:
Block
, Row
, Column
, AccNumber
, Name
,
SrcPlt
, SrcRow
, SrcCol
, vendor
, ImageID
,
probe
. The column spotanno$probe
is of class numeric
,
with values from 1 to 4224, referring to the rows of cloneanno
.
hybanno
is a data frame with 175 rows, one for each array. Its
columns are:
filename
, patientid
, slideid
. The column patientid
is of class character
, refering to the patients in
pData(eset)
.
Holger Sueltmann, DKFZ. Also available from ArrayExpress, Accession number E-DKFZ-1.
The data import fro Genepix files and Excel tables, and the
preprocessing is described in the files preproc.Rnw and preproc.pdf
in the scripts
subdirectory of the package. Please refer to these for
details!
Gene expression in kidney cancer is associated with novel tumor subtypes, cytogenetic abnormalities and metastasis formation. Holger Sueltmann, Anja von Heydebreck, Wolfgang Huber, Ruprecht Kuner, Andreas Buness, Markus Vogt, Bastian Gunawan, Martin Vingron, Laszlo Fuezesi, and Annemarie Poustka. Submitted.
data(qua) qua[1,,1] data(spotanno) spotanno[1,] data(hybanno) hybanno[1,] ## see also the vignette