A RangedSummarizedExperiment Container for VCF/GDS Data with GDS
Backend
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Documentation for package ‘VariantExperiment’ version 1.12.0
Help Pages
| VariantExperiment-package | VariantExperiment: A package to represent VCF / GDS files using standard SummarizedExperiment metaphor with on-disk representation. |
| gdsfile-method | VariantExperiment-class |
| gdsfile<--method | VariantExperiment-class |
| loadVariantExperiment | loadVariantExperiment to load the GDS back-end SummarizedExperiment object into R console. |
| makeVariantExperimentFromGDS | makeVariantExperimentFromGDS |
| makeVariantExperimentFromSEQGDS | makeVariantExperimentFromGDS |
| makeVariantExperimentFromSNPGDS | makeVariantExperimentFromGDS |
| makeVariantExperimentFromVCF | The function to convert VCF files directly into VariantExperiment object. |
| saveVariantExperiment | saveVariantExperiment Save all the assays in GDS format, including in-memory assays. Delayed assays with delayed operations on them are realized while they are written to disk. |
| showAvailable | ShowAvailable |
| VariantExperiment | VariantExperiment-class |
| VariantExperiment-class | VariantExperiment-class |