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GDSArray:Representing GDS files as array-like objects
GDS files are widely used to represent genotyping or sequence data. The GDSArray package implements the `GDSArray` class to represent nodes in GDS files in a matrix-like representation that allows easy manipulation (e.g., subsetting, mathematical transformation) in _R_. The data remains on disk until needed, so that very large files can be processed.
Maintained by Xiuwen Zheng. Last updated 1 months ago.
infrastructuredatarepresentationsequencinggenotypingarray
11.0 match 5 stars 6.72 score 8 scripts 2 dependentsbioc
VariantExperiment:A RangedSummarizedExperiment Container for VCF/GDS Data with GDS Backend
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.
Maintained by Qian Liu. Last updated 5 months ago.
infrastructuredatarepresentationsequencingannotationgenomeannotationgenotypingarray
11.0 match 1 stars 5.00 score 2 scripts