hippo_diffexp {HIPPO}R Documentation

HIPPO's differential expression

Description

HIPPO's differential expression

Usage

hippo_diffexp(
  sce,
  top.n = 5,
  switch_to_hgnc = FALSE,
  ref = NA,
  k = NA,
  plottitle = ""
)

Arguments

sce

SingleCellExperiment object with hippo

top.n

number of markers to return

switch_to_hgnc

if the current gene names are ensemble ids, and would like to switch to hgnc

ref

a data frame with columns 'hgnc' and 'ensg' to match each other, only required when switch_to_hgnc is set to TRUE

k

number of rounds of clustering that you'd like to see result. Default is 1 to K

plottitle

title of the resulting plot

Value

list of differential expression result

Examples

data(toydata)
set.seed(20200321)
toydata = hippo(toydata,K = 10,z_threshold = 1,outlier_proportion = 0.01)
result = hippo_diffexp(toydata)

[Package HIPPO version 1.2.0 Index]