# Analyze genomic data

## Documentation for package ‘Genominator’ version 1.0.3

## User Guides and Package Vignettes

Read overview or browse directory.

## Help Pages

Genominator-package | Data backend for Genomic data
$,ExpData-method | Class "ExpData"
aggregateExpData | Collapse data into unique entries
applyMapped | Apply a function over mapped data.
collapseExpData | Combine multiple data sets
computeCoverage | Compute effort-coverage values
ExpData | Class "ExpData"
ExpData-class | Class "ExpData"
Genominator | Data backend for Genomic data
getColnames | Class "ExpData"
getDB | Class "ExpData"
getDBName | Class "ExpData"
getIndexColumns | Class "ExpData"
getMode | Class "ExpData"
getRegion | Select a region from an \code{ExpData} object.
getSchema | Class "ExpData"
getTablename | Class "ExpData"
head,ExpData-method | Class "ExpData"
importFromAlignedReads | Import aligned reads to database
importToExpData | Import data to database
initialize,ExpData-method | Class "ExpData"
joinExpData | Merge ExpData objects
listTables | Class "ExpData"
mergeWithAnnotation | Combine data with annotation
plot.genominator.coverage | Create coverage plot
plot.genominator.goodness.of.fit | Create goodness-of-fit quantile-quantile plot
regionGoodnessOfFit | Calculate goodness-of-fit statistics
regionGoodnessOfFit,data.frame-method | Calculate goodness-of-fit statistics
regionGoodnessOfFit,ExpData-method | Calculate goodness-of-fit statistics
regionGoodnessOfFit-methods | Calculate goodness-of-fit statistics
show,ExpData-method | Class "ExpData"
splitByAnnotation | Split data into a list by annotation element.
summarizeByAnnotation | Summarize data based on genome annotation.
summarizeExpData | Summarize a data column
[,ExpData-method | Class "ExpData"