pam50
PAM50 classifier for identification of breast cancer molecular subtypes (Parker et al 2009)
Bundled with genefu · exported, loads via data()
Class
list
Elements
6
Missing
0
Format
rda · gzip
version 2 · 2.7 KB
File
data/pam50.rda
Fingerprint
c1bac633
Format documented
Yes
Source
http://jco.ascopubs.org/cgi/content/short/JCO.2008.18.1370v1
About this object
R's general-purpose container. Elements can be any type and any size. R object catalogue
Structure
Distinct
6
Nesting depth
2
Element length
1 – 250
Total length
257
Nested rows
50
Nested columns
3
Elements
Element
Type
Distinct
Missing
Summary
centroidsnumeric2500-2.7465 – 2.9228·50 × 5 matrixmean 3.2e-11
Min.
-2.7465
1st Qu.
-0.4548
Median
0.0389
Mean
3.2e-11
3rd Qu.
0.4414
Max.
2.9228
Std. dev
0.7673
Skewness
0.1878
Kurtosis
2.043
Outliers
83 low · 5 high
centroids.maplist20nested·50 rows nested
Element length
50 – 50
Total length
150
Nested rows
50
What is inside it
Element
Type
Distinct
Missing
Summary
probe
character
50
0
3 – 7 characters
probe.centroids
character
50
0
3 – 7 characters
EntrezGene.IDinteger5009 – 120224mean 1.579e+4
Min.
9
1st Qu.
2072.75
Median
4462.5
Mean
15788.2
3rd Qu.
11049.8
Max.
120224
Std. dev
25432
Skewness
2.276
Kurtosis
4.953
Outliers
110 low · 11 high
method.cor
character
1
0
8 characters
method.centroids
character
1
0
4 characters
std
character
1
0
4 characters
mins
numeric
1
0
5
Every nested table has these 3 columns
- probe
- probe.centroids
- EntrezGene.ID
Version history
| Version | Released | Size | Change | Stored as | Confidence |
|---|---|---|---|---|---|
| 1.0.9 | 2010-08-25 | 6 elements | Unchanged | rda · gzip version 2 · 2.7 KB | exact |
| 1.0.8 | 2010-07-26 | 6 elements | Data changed Class, Type, Missing and Distinct unchanged | rda · gzip version 2 · 2.7 KB | exact |
| 1.0.5 | 2010-04-15 | 6 elements | Unchanged | rda · gzip version 2 · 2.7 KB | exact |
| 1.0.4 | 2010-03-26 | 6 elements | Data changed Class, Type, Missing and Distinct unchanged | rda · gzip version 2 · 2.7 KB | exact |
| 1.0.1 | 2010-01-26 | 6 elements | Unchanged | rda · gzip version 2 · 2.7 KB | exact |
| 1.0.0 | 2010-01-01 | 6 elements | – | rda · gzip version 2 · 2.7 KB | exact |
Class is the chain of classes R records on the object, most specific first. The facts above give the short name for the same chain. Type is what the values in it are. Missing is how many values were recorded as absent. Distinct is how many different values were counted in the object.