Create_redeemR | R Documentation |
This function is to create redeemR with basic information
Create_redeemR(
VariantsGTSummary = VariantsGTSummary,
qualifiedCellCut = 10,
VAFcut = 1,
Cellcut = 2,
maxctscut = 2
)
VariantsGTSummary |
simply put GTSummary (Generated by redeemR.read) |
qualifiedCellCut |
The minimum median mitochondrial coverage for a qualified cell, default is 10 |
VAFcut |
only use variants with VAF smaller than VAFcut. Default is 1. We can use smaller value to constrain into only using rare variants |
Cellcut |
only use variants with at least cellcut cells carry |
maxctscut |
only use variants with at least in one cell with at leaset maxctscut variant fragments |
OnlyHetero |
If only consider the heteroplasmy variants, default is T |
redeemR class
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