AddDist-redeemR-method: AddDist This add Jaccard, Dice, Jaccard3W distance and stored...

In chenweng1991/scMitoTracing: R package for Regulatory multi-omics with Deep Mitochondrial mutation profiling

AddDist This add Jaccard, Dice, Jaccard3W distance and stored in DistObjects

Description

AddDist This add Jaccard, Dice, Jaccard3W distance and stored in DistObjects

Usage

## S4 method for signature 'redeemR'
AddDist(
  object,
  jaccard = T,
  dice = T,
  jaccard3w = T,
  w_jaccard = T,
  w_cosine = T,
  weightDF = NULL,
  NN = 1,
  LSIdist = T,
  dim = 2:50
)

Arguments

object	redeemR class
jaccard	default=T
dice	default=T
jaccard3w	default=T
w_jaccard	default=T
w_cosine	default=T
NN	To replace NA, which means a variant shown in the object is not shown in the weight vector, with a number, default is 1 for jaccard system.
LSIdist	default=T
dim	the dimensions to use to calculate LSI distance default is 2:50
weight	A two column dataframe, "Variant"(The variant name should match cell-variant matrix column, e.g, Variants310TC), "weight" (numeric)

Value

redeemR class

chenweng1991/scMitoTracing documentation built on July 2, 2024, 8:41 p.m.