BDstrat: Stratify BIGDAWG Datasets by Specific Alleles
In HLAtools: Toolkit for HLA Immunogenomics
BDstrat R Documentation
Stratify BIGDAWG Datasets by Specific Alleles
Description
Divides a BIGDAWG-formatted dataset into two subsets (strata) that do and do not include specified alleles.
Usage
BDstrat(dataset, alleles, warnBelow = 21)
Arguments
dataset
A BIGDAWG-formatted data frame or a path to a BIGDAWG-formatted, tab-delimited text file.
alleles
A vector of allele names in the locus-asterisk-allele_name format (e.g., "A*01:01:01:01").
warnBelow
An integer that defines a low number of subjects in a stratum, generating a warning message. The default value is 21.
Value
A list-object of two BIGDAWG-formatted data frames titled dataset$<alleles>-positive and dataset$<alleles>-negative. The positive list element includes all subjects with the specified alleles, and the negative list element includes all subjects without those specified alleles.
References
Examples
HLA_data.multi.strat <- BDstrat(sHLAdata,c("DRB1*16:02:01:01","DRB1*04:07:01:01","A*25:01:01:01"))
HLA_data.single.strat <- BDstrat(sHLAdata,"DRB1*16:02:01:01")
HLAtools documentation built on June 8, 2025, 12:24 p.m.
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| BDstrat | R Documentation |
Stratify BIGDAWG Datasets by Specific Alleles
Description
Divides a BIGDAWG-formatted dataset into two subsets (strata) that do and do not include specified alleles.
Usage
BDstrat(dataset, alleles, warnBelow = 21)
Arguments
dataset |
A BIGDAWG-formatted data frame or a path to a BIGDAWG-formatted, tab-delimited text file. |
alleles |
A vector of allele names in the locus-asterisk-allele_name format (e.g., "A*01:01:01:01"). |
warnBelow |
An integer that defines a low number of subjects in a stratum, generating a warning message. The default value is 21. |
Value
A list-object of two BIGDAWG-formatted data frames titled dataset$<alleles>-positive and dataset$<alleles>-negative. The positive list element includes all subjects with the specified alleles, and the negative list element includes all subjects without those specified alleles.
References
Examples
HLA_data.multi.strat <- BDstrat(sHLAdata,c("DRB1*16:02:01:01","DRB1*04:07:01:01","A*25:01:01:01"))
HLA_data.single.strat <- BDstrat(sHLAdata,"DRB1*16:02:01:01")
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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