Description Usage Arguments Value Examples
Detects whether a sample is contaminated another sample of its same species. The input file should be in vcf format.
1 2 |
file |
VCF input object |
rmCNV |
Remove CNV regions, default is FALSE |
cnvobj |
cnv object, default is NULL |
config |
config information of parameters. A default set is generated as part of the model and is included in a model object, which contains |
class_model |
An SVM classification model |
regression_model |
An SVM regression model |
A list containing (1) stat: a data frame with all statistics for contamination estimation; (2) result: contamination estimation (Class = 0, pure; Class = 1, contaminated)
1 2 | data(vcf_example)
result <- sssc(file = vcf_example)
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