VCFByTranscript: download VCF, optionally in tidyVCF format
In wrightrc/r1001genomes: Access and analyze the 1001 genomes Arabidopsis resequencing dataset

download VCF, optionally in tidyVCF format

1 2	VCFByTranscript(geneInfo, strains = NULL, tidy = TRUE, dataOnly = TRUE)

`geneInfo`	single row of geneInfo dataframe
`strains`	numeric vector of strain/ecotypes to include
`tidy`	logical, if true VCF will be provided in tidyVCF format, see vcfR documentation
`dataOnly`	logical, if true only return the $dat field of the VCF, (drop the metadata)

the VCF, in the format as requested by the parameters of the function

## make a gene info DF
geneInfo <- getGeneInfo(genes = "AT3G62980")

## download a single VCF
myVCF <- VCFByTranscript(geneInfo)

wrightrc/r1001genomes documentation built on Nov. 10, 2019, 12:45 p.m.

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