sesame - SEnsible Step-wise Analysis of DNA MEthylation BeadChips
Tools For analyzing Illumina Infinium DNA methylation arrays. SeSAMe provides utilities to support analyses of multiple generations of Infinium DNA methylation BeadChips, including preprocessing, quality control, visualization and inference. SeSAMe features accurate detection calling, intelligent inference of sex, age, species and strain, and advanced quality control routines.
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dnamethylationmethylationarraypreprocessingqualitycontrolbioinformaticsdna-methylationmicroarray
11.57 score 84 stars 2 dependents 428 scripts 2.0k downloadssesameData - Supporting Data for SeSAMe Package
Provides supporting annotation and test data for SeSAMe package. This includes chip tango addresses, mapping information, performance annotation, and trained predictor for Infinium array data. This package provides user access to essential annotation data for working with many generations of the Infinium DNA methylation array. Currently we support human array (HM27, HM450, EPIC), mouse array (MM285) and the HorvathMethylChip40 (Mammal40) array.
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experimentdatamicroarraydatagenomeexperimenthubmethylationarraydatabioinformaticsdna-methylationmicroarraydatapkg
10.05 score 84 stars 4 dependents 160 scriptswheatmap - Incrementally Build Complex Plots using Natural Semantics
Builds complex plots, heatmaps in particular, using natural semantics. Bigger plots can be assembled using directives such as 'LeftOf', 'RightOf', 'TopOf', and 'Beneath' and more. Other features include clustering, dendrograms and integration with 'ggplot2' generated grid objects. This package is particularly designed for bioinformaticians to assemble complex plots for publication.
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7.07 score 10 stars 4 dependents 53 scripts 1.2k downloads