R Graphical Manual

Last data update: 2014.03.03

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Results 1 - 7 of 7 found.
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Simulation.pickgene (Package: pickgene) : Yi Lin's simulations for microarray analysis

Example simulations

● Data Source: BioConductor
● Keywords:
● Alias: Simulation.pickgene
● 4 images

em.ggb (Package: pickgene) : EM calculation for Gamma-Gamma-Bernoulli Model

The function plots contours for the odds that points on microarray show differential expression between two conditions (e.g. Cy3 and Cy5 dye channels on the same microarray).

● Data Source: BioConductor
● Keywords: models
● Alias: em.ggb
● 0 images

model.pickgene (Package: pickgene) : Create Model Matrix for Orthogonal Contrasts

The function created a model matrix of orthogonal contrasts to be used by pickgene.

● Data Source: BioConductor
● Keywords: utilities
● Alias: model.pickgene
● 0 images

oddsplot (Package: pickgene) : Odds Plot for Differential Microarray Expression

The function plots contours for the odds that points on microarray show differential expression between two conditions (e.g. Cy3 and Cy5 dye channels on the same microarray).

● Data Source: BioConductor
● Keywords: hplot, models
● Alias: oddsplot
● 0 images

pickgene-internal (Package: pickgene) : Internal pickgene functions.

These are generally not to be called by the user.

● Data Source: BioConductor
● Keywords: internal
● Alias: adjustlevel, chen.poly, chipnorm, dencont, dencum, denlines, do.oddsplot, fitgg, gammaden, holms, lod.ggb, lod.plot, lodprobes, loglik, makecont, multipickgene, nlminb, nloglik, normal.richmond, npdiag, nploglik, orangene, pickedchisq, pickedhist, pickedpair, pickedscore, pickgene-internal, pickgene.poly, pickgene.two, pickgene2, pmarg, predrecur, rangene, rankgene, robustbox, s.check0, s.check1, s.check2, s.marg, shrinkplot, sixden, toprankgene, twoarray.norm, twoarray.plot, twowayanovapickgene
● 0 images

pickgene (Package: pickgene) : Plot and Pick Genes based on Differential Expression

The function picks plots the average intensity versus linear contrasts (currently linear, quadratic up to cubic) across experimental conditions. Critical line is determine according to Bonferroni-like multiple comparisons, allowing SD to vary with intensity.

● Data Source: BioConductor
● Keywords: hplot, models
● Alias: pickgene
● 0 images

robustscale (Package: pickgene) : Robust Estimation of Median (center) and MAD (scale)

Smoothing spline estimate of median and mean absolute deviation (MAD).

● Data Source: BioConductor
● Keywords: robust, smooth
● Alias: robustscale
● 0 images