icet.plot: Cell Type Visualization via IceT

In rongmastat/IceT0.2: Identification of Cell Types using Recovered Gene Expression

Description

Make plots based on results of IceT.

Usage

icet.plot(icet, pch = 20, reset = FALSE, recover.data = NA,
  imputation = FALSE, max_iter = 1000, perplexity = 50, eps = 2,
  MinPts = 5, set.color = NA)

Arguments

icet	The list object returned from the icet function.
pch	A graphical parameter, specifying the characteristics of plotting points.
reset	A logical (default: FALSE), if TRUE, the user can set other parameters provided the recover.data is included.
recover.data	The recovered data generated by recover function; or imputated data. Used only when reset = TRUE.
imputation	A logical (default: FALSE) indicating whether the imputated data is used. Used only when reset = TRUE.
max_iter	integer; Number of iterations in Rtsne function (default: 1000). Can only be changed when reset = TRUE.
eps	Reachability distance in dbscan function (default: 2). Can only be changed when reset = TRUE.
MinPts	Reachability minimum no. of points in dbscan function (default: 5). Can only be changed when reset = TRUE.
set.color	Prescribe the colors for the data representations. Defaul as the colors by IceT.
numeric;	Perplexity parameter in Rtsne function (default: 50). Can only be changed when reset = TRUE.

Author(s)

Rong Ma, University of Pennsylvania <[e-mail]>

rongmastat/IceT0.2 documentation built on May 27, 2019, 1:50 p.m.