Distributed computing by file or by range


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Documentation for package ‘GenomicFiles’ version 1.2.1

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BamFileViews Views into a set of BAM files
BamFileViews-class Views into a set of BAM files
BamFileViews-method Views into a set of BAM files
BigWigFileViews Views into a set of BigWig files
BigWigFileViews-class Views into a set of BigWig files
BigWigFileViews-method Views into a set of BigWig files
class:GenomicFiles GenomicFiles objects
class:GenomicFileViews Views into a set of files
colData-method GenomicFiles objects
colData<--method GenomicFiles objects
countBam-method Views into a set of BAM files
coverage-method Views into a set of BigWig files
dim-method Views into a set of files
dim-method GenomicFiles objects
dimnames-method Views into a set of files
dimnames-method GenomicFiles objects
dimnames<--method Views into a set of files
dimnames<--method GenomicFiles objects
exptData-method GenomicFiles objects
exptData<--method GenomicFiles objects
FaFileViews Views into a set of Fasta files
FaFileViews-class Views into a set of Fasta files
FaFileViews-method Views into a set of Fasta files
fileExperiment Views into a set of files
fileExperiment<- Views into a set of files
fileList Views into a set of files
fileList<- Views into a set of files
fileRange Views into a set of files
fileRange<- Views into a set of files
files GenomicFiles objects
files-method GenomicFiles objects
files<- GenomicFiles objects
files<--method GenomicFiles objects
fileSample Views into a set of files
fileSample<- Views into a set of files
findTypeRegistry Functions for creating and searching a registry of file types.
GenomicFiles GenomicFiles objects
GenomicFiles-class GenomicFiles objects
GenomicFiles-method GenomicFiles objects
GenomicFileViews Views into a set of files
GenomicFileViews-class Views into a set of files
isPacked Range transformations of a 'GenomicRanges' object for optimal file queries.
makeFileType Functions for creating and searching a registry of file types.
names-method Views into a set of files
names<--method Views into a set of files
pack Range transformations of a 'GenomicRanges' object for optimal file queries.
pack-method Range transformations of a 'GenomicRanges' object for optimal file queries.
reduceBy Parallel computations across files or ranges
reduceByFile Parallel computations across files or ranges
reduceByFile-method Parallel computations across files or ranges
reduceByRange Parallel computations across files or ranges
reduceByRange-method Parallel computations across files or ranges
reduceByYield Iterate through a BAM (or other) file, reducing output to a single result.
reduceFiles Parallel computations across files or ranges
reduceRanges Parallel computations across files or ranges
registerFileType Functions for creating and searching a registry of file types.
registry-utils Functions for creating and searching a registry of file types.
rowData-method GenomicFiles objects
rowData<--method GenomicFiles objects
scanBam-method Views into a set of BAM files
show-method Views into a set of files
show-method GenomicFiles objects
summarizeOverlaps-method Views into a set of BAM files
summary-method Views into a set of BigWig files
unpack Un-pack results obtained with a pack()ed group of ranges
unpack-method Un-pack results obtained with a pack()ed group of ranges
yieldSize-method Views into a set of files
yieldSize<--method Views into a set of files
[-method Views into a set of files
[-method GenomicFiles objects