leukemia72: desease data

In Biocomb: Feature Selection and Classification with the Embedded Validation Procedures for Biomedical Data Analysis

Description

Leukemia dataset includes the bone marrow samples obtained from acute leukemia patients at the time of diagnosis: 25 acute myeloid leukemia (AML) samples; 9 T-lineage acute lymphoblastic leukemia (ALL) samples; and 38 B-lineage ALL samples. After preprocessing, the 100 genes with the largest variation across samples are selected.

Usage

leukemia72

Format

A data.frame containing 72 observations of 101 variables: 100 features and class with three diagnosis: 38 B-lineage ALL, 9 T-lineage ALL and 25 AML.

Source

Handl J, Knowles J, Kell DB, Computational cluster validation in post-genomic data analysis, Bioinformatics 21:3201-3212, 2005.

See Also

data_test, datasetF6, leukemia72_2, leukemia_miss

Examples

# load the dataset
data(leukemia72)
# X95735_at
with(leukemia72, by(X95735_at,Class,mean))

# M27891_at
with(leukemia72,tapply(M27891_at, Class, FUN = mean))
with(leukemia72, table(M27891_at=ifelse(M27891_at<=mean(M27891_at), "1", "2"), Class))

Example output

Loading required package: gtools
Loading required package: Rcpp
OpenJDK 64-Bit Server VM warning: Can't detect primordial thread stack location - find_vma failed
Warning messages:
1: In rgl.init(initValue, onlyNULL) : RGL: unable to open X11 display
2: 'rgl.init' failed, running with 'rgl.useNULL = TRUE'. 
Class: B
[1] 2.46924
------------------------------------------------------------ 
Class: M
[1] 3.454843
------------------------------------------------------------ 
Class: T
[1] 2.445268
       B        M        T 
2.155787 3.715526 2.743454 
         Class
M27891_at  B  M  T
        1 38  1  5
        2  0 24  4

Biocomb documentation built on May 1, 2019, 9:38 p.m.