Big Data Management of Genome-wide Sequencing Variants


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Documentation for package ‘SeqArray’ version 1.6.1

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SeqArray-package Big Data Management of Genome-wide Sequencing Variants
alt-method SeqVarGDSClass
asVCF-method SeqVarGDSClass
filt-method SeqVarGDSClass
granges-method SeqVarGDSClass
qual-method SeqVarGDSClass
ref-method SeqVarGDSClass
seqApply Apply Functions Over Array Margins
SeqArray Big Data Management of Genome-wide Sequencing Variants
seqClose Close a SeqArray object
seqClose-method Close a SeqArray object
seqCompress.Option Compression Options for Importing VCF File(s)
seqDelete Delete variables in a Sequencing GDS File
seqExampleFileName Example GDS file
seqGDS2VCF Convert to a VCF file
seqGetData Get Data from a Sequencing GDS file
seqGetFilter Get the Filter of Samples and Variants
seqInfoNewVar Add a variable to the INFO field
seqMerge Merge Multiple Sequencing GDS Files
seqOpen Open a Sequencing GDS File
seqParallel Apply Functions in Parallel
seqSetFilter Set a filter to sample or variant
seqSlidingWindow Apply functions via a sliding window over variants
seqSummary Get the summary of a GDS file
seqTranspose Transpose Data Array
SeqVarGDSClass SeqVarGDSClass
SeqVarGDSClass-class SeqVarGDSClass
seqVCF.Header Parse the header of a VCF file
seqVCF.SampID Get the sample IDs of a VCF file
seqVCF2GDS Reformat VCF files