MapCODEXtoCITE: Wraps MapCODEXtoCITE.internal using STvEA.data class

In CamaraLab/STvEA: Spatially-resolved Transcriptomics via Epitope Anchoring

Wraps MapCODEXtoCITE.internal using STvEA.data class

Description

Wraps MapCODEXtoCITE.internal using STvEA.data class

Usage

MapCODEXtoCITE(
  stvea_object,
  num_chunks,
  seed = NULL,
  num_cores = 1,
  num.cc = NULL,
  k.anchor = 20,
  k.filter = 100,
  k.score = 80,
  k.weight = 100
)

Arguments

stvea_object	STvEA.data class with CODEX and CITE-seq data
num_chunks	number of equal sized chunks to split CODEX dataset into for correction
seed	set.seed before randomly sampling chunks of CODEX dataset
num_cores	number of cores to use in parallelized correction of CODEX dataset
num.cc	number of canonical vectors to calculate. Defaults to number of proteins in common - 1
k.anchor	number of nn used to find anchors via mutual nearest neighbors
k.filter	number of nn in original feature space to use for filtering
k.score	number of nn to use in shared nearest neighbor scoring
k.weight	number of nn in original query feature space to make correction vectors

CamaraLab/STvEA documentation built on April 2, 2024, 6:07 a.m.