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rama (version 1.46.0)

Robust Analysis of MicroArrays

Description

Robust estimation of cDNA microarray intensities with replicates. The package uses a Bayesian hierarchical model for the robust estimation. Outliers are modeled explicitly using a t-distribution, and the model also addresses classical issues such as design effects, normalization, transformation, and nonconstant variance.

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Version

Version

1.46.0

License

GPL (>= 2)

Maintainer

Raphael Gottardo

Last Published

February 15th, 2017

Functions in rama (1.46.0)

ls.effect

Compute the least squares estimates of the all the effects of the general model.
hiv

Cellular gene expression upon human immunodeficiency virus type 1 infection of CD4+-T-Cell lines
weight.plot

Plot the weights of a given array using the spatial location of the genes on the slide
fit.model

Robust estimation of microarray intensities with replicates
arrange.row

Reorder a dataset by increasing row order.
ratio.plot

Plot the estimated log ratios against the overall intensities
is.row.na

Test if a matrix contains missing values
est.shift

Estimate the shift used in the log transformation
mat.mean

Compute the mean and standard deviation of each row in a data matrix