Morphological Profiling Statistics

Introduction

This is a collection of R tools for statistical modeling morphological profiling experiments aka CellPainting.

This is built on R and meant to be run from within KNIME.

Installiation

Install R packages

devtools::install_github("momeara/MPStats")
install.packages("Rserve")

Run AGM Chapter Vignette as a batch

git clone git@github.com:momeara/MPStats.git
cd MPStats/vignettes/AGM_chapter
make clean
make run_analysis

Run AGM Chapter Vignette from within KNIME

Start Rserver in R

library(Rserve)
Rserve(args = "--vanilla")

1. Open vignettes/AGM_chapter/knime_workflows/MPStats_AGM.knar.knwf in KNIME.
2. Set the path for the plate data "parse well scores" panel
3. Click Excute All from the commandbar