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Genominator (version 1.26.0)

Analyze, manage and store genomic data

Description

Tools for storing, accessing, analyzing and visualizing genomic data.

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Version

Version

1.26.0

License

Artistic-2.0

Maintainer

James Bullard

Last Published

February 15th, 2017

Functions in Genominator (1.26.0)

summarizeByAnnotation

Summarize data based on genome annotation.
mergeWithAnnotation

Combine data with annotation
computeCoverage

Compute effort-coverage values
validAnnotation

Check for validity of a annotation object.
joinExpData

Merge ExpData objects
splitByAnnotation

Split data into a list by annotation element.
summarizeExpData

Summarize a data column
importToExpData

Import data to database
collapseExpData

Combine multiple data sets
addPrimingWeights

Adding priming weights to an AlignedRead object.
ExpData-class

Class "ExpData"
importFromAlignedReads

Import aligned reads to database
aggregateExpData

Collapse data into unique entries
computePrimingWeights

Compute weights to correct for random hexamer priming.
yeastAnno

Example datasets from Genominator
plot.genominator.goodness.of.fit

Create goodness-of-fit quantile-quantile plot
regionGoodnessOfFit-methods

Calculate goodness-of-fit statistics
plot.genominator.coverage

Create coverage plot
Genominator-package

Data backend for Genomic data
makeGeneRepresentation

Compute a gene representation from annotation.
applyMapped

Apply a function over mapped data.
getRegion

Select a region from an ExpData object.