VariantExperiment is a Bioconductor package for saving data in VCF/GDS format into RangedSummarizedExperiment object. The high-throughput genetic/genomic data are saved in GDSArray objects. The annotation data for features/samples are saved in DelayedDataFrame format with mono-dimensional GDSArray in each column. The on-disk representation of both assay data and annotation data achieves on-disk reading and processing and saves memory space significantly. The interface of RangedSummarizedExperiment data format enables easy and common manipulations for high-throughput genetic/genomic data with common SummarizedExperiment metaphor in R and Bioconductor.
|Author||Qian Liu [aut, cre], Hervé Pagès [aut], Martin Morgan [aut]|
|Bioconductor views||Annotation DataRepresentation GenomeAnnotation GenotypingArray Infrastructure Sequencing|
|Maintainer||Qian Liu <Qian.Liu@roswellpark.org>|
|Package repository||View on Bioconductor|
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