caha |
Clustering Goodness measured by the Calinski-Harabasz index |
clin2mim |
Output a script file to WinMIM, linking clinical data and gene expression |
cluster.q |
Clustering Goodness measured by Q2 |
estimatep0 |
Estimate proportion unchanged genes |
fetchSignal |
Fetch data from the GATC database |
firstpass |
First pass description of GeneChip data |
fom |
Clustering Figure of Merit |
fp.fn |
Calculation of fp and fn based on a vector of p-values |
Fstat |
Calculation of F statistic by gene given a linear model |
gap |
GAP statistic clustering figure of merit |
JT.test |
Jonckheere-Terpstra trend test |
list.experiments |
Display all experiment names and id's |
list.intersection.p |
p-value for intersection of two gene lists. |
mat2TeX |
Ouput matrix to LaTeX |
myclus |
A clustering function |
nn.impute |
Impute mean based on k nearest neighbours |
normalise |
Normalise arrays |
outlier |
Identify outliers in the multivariate distribution |
p0.mom |
Estimate proportion unchanged genes |
pava |
Pooling of Adjacent Violators |
pava.fdr |
Estimate of the FDR and the proportion unchanged genes |
permutation.t |
bootstrap p-value for matrix with variables in rows and with arbitrary missing structure. |
R2mim |
Output a script file to WinMIM |
rank.genes |
Rank genes with respect to multiple criteria |
rank.trend |
Trens analysis based on ranks |
rsd.test |
Compare two groups with respect to their RSD (CV) |
samrocN |
Calculate ROC curve based SAM statistic |
samrocNboot |
Calculate ROC curve based SAM statistic |
Xprep |
Calculation of input to stat.bayesian starting from linear model |
Zfreq |
Bayesian analysis of a Comparative experiment with two groups |