VCFList: download and store several VCFs in a list structure, named by...
In wrightrc/r1001genomes: Access and analyze the 1001 genomes Arabidopsis resequencing dataset
Description
Usage
Arguments
Value
Examples
Description
download and store several VCFs in a list structure, named by their transcirpt ID
Usage
1
Arguments
geneInfo
a geneInfo dataframe as created by the getGeneInfo() function
by
Value
list of VCF objects
Examples
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## first make a gene info DF
geneInfo <- getGeneInfo(genes = c("AT3G62980", "AT3G26810"))
## download and compile a list of VCF files
myVCFList <- VCFList(geneInfo)
## other functions in this package that operate on VCF data can be applied
## to VCFList objects using plyr::llply()
myVCFList <- plyr::llply(myVCFList, parseEFF)
myVCFList <- plyr::llply(myVCFList, Nucleotide_diversity)
myVCFList <- plyr::llply(myVCFList, addAccDetails)
wrightrc/r1001genomes documentation built on Nov. 10, 2019, 12:45 p.m.
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Description Usage Arguments Value Examples
Description
download and store several VCFs in a list structure, named by their transcirpt ID
Usage
1 |
Arguments
geneInfo |
a geneInfo dataframe as created by the getGeneInfo() function |
by |
Value
list of VCF objects
Examples
1 2 3 4 5 6 7 8 9 10 11 | ## first make a gene info DF
geneInfo <- getGeneInfo(genes = c("AT3G62980", "AT3G26810"))
## download and compile a list of VCF files
myVCFList <- VCFList(geneInfo)
## other functions in this package that operate on VCF data can be applied
## to VCFList objects using plyr::llply()
myVCFList <- plyr::llply(myVCFList, parseEFF)
myVCFList <- plyr::llply(myVCFList, Nucleotide_diversity)
myVCFList <- plyr::llply(myVCFList, addAccDetails)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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