README.md

In CHuanSite/ppclp: Probabilistic Principal Curve with Length Penalty

ppclp

A R package to implement the probabilistic principal curve with length penalty and fixed starting and ending point. This package includes both the 2D and 3D version.

Shiny

A shiny app has been built for this package, please refer to ppclpShiny

Functions

ppclp2D:This function implements the probabilistic principal curve with length penalty(ppclp) algorithm in 2D image

ppclp3D:This function implements the probabilistic principal curve with length penalty(ppclp) algorithm in 3D image

Data

spectExample: A list, containing data of one 2D "3" number from MNIST dataset, including the x, y coordinates, start point, end point. threeExample: A list, containing data from one 3D SPECT on colon image, including the x, y, z coordinates, start point, end point.

Example

2D MINST example

Load the package into R

library(devtools)
install_github("CHuanSite/ppclp")

Install the dependent packages

library(tidyverse)
library(splines)
library(splines2)

Load MNIST data into R from the package ppclp

library(ppclp)
data("threeExample")

Compute the principal curve

tmpCurve = ppclp2D(threeExample$x, threeExample$y, threeExample$xFix, threeExample$yFix)

Plot the final result

plot(threeExample$x, threeExample$y, xlim = c(0,1), ylim = c(0,1), pch = 16, cex = 0.8)
lines(tmpCurve$xFit, tmpCurve$yFit, type = "l", col = "red", lwd = 5)

3D SPECT example

Load the package into R

library(devtools)
install_github("CHuanSite/ppclp")

Install the dependent packages

library(tidyverse)
library(plotly)
library(splines)
library(splines2)

CHuanSite/ppclp documentation built on May 8, 2021, 3:21 a.m.