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nudge (version 1.38.0)

Normal Uniform Differential Gene Expression detection

Description

Package for normalizing microarray data in single and multiple replicate experiments and fitting a normal-uniform mixture to detect differentially expressed genes in the cases where the two samples are being compared directly or indirectly (via a common reference sample)

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Version

Version

1.38.0

License

GPL-2

Maintainer

Nema Dean

Last Published

February 15th, 2017

Functions in nudge (1.38.0)

Function for normalizing the mean of average-across-replicates log ratios

Microarray intensity expression levels for like-like data

Function for normalizing data, fitting a normal-uniform mixture and estimating probabilities of differential expression in the case where the two samples are being compared indirectly through a common reference sample

Indicator of known truly non differentially expressed genes in the hiv dataset

Microarray intensity expression levels for HIV type 1 infection of CD4+ T-Cell lines

Function for normalizing the mean and variance of average-across-replicates log ratio differences

Function for normalizing data, fitting a normal-uniform mixture and estimating probabilities of differential expression in the case where the two samples are being compared directly

Function for normalizing the mean and variance (or just the variance) of single replicate log ratios

Function for normalizing the mean of single replicate log ratios

Function for normalizing the mean and variance of average-across-replicates log ratios

Indicator of known truly differentially expressed genes in the hiv dataset

Function for normalizing the mean of average-across-replicates log ratio differences