demo_Getting_Started.m

% Learn to use SCGEATOOL - Single-cell Gene Expression Analysis Tool
echo off
clc
echo on

%% DEMO_GETTING_STARTED - Using SCGEATOOL
%
% The SCGEATOOL provides a flexible interface where you can interactively
% explore scRNAseq data and perform analysis. For this demonstration you
% will need to view both the command window and figure windows.

%% (1/4) Change working directory

cdgea;

pause % Press any key to continue...

%% (2/4) Load example data sets
% X - gene-by-cell expression matrix
% g - gene list
% s - coordinates of cell embedding (optional)

load example_data/testXgs.mat X g s

pause % Press any key to continue...

%% (3/4) Make a SingleCellExperiment object SCE

% sce = SingleCellExperiment(X, g, s);   % s is optional
sce = SingleCellExperiment(X, g);

pause % Press any key to continue...

%% (4/4) Run SCGEATOOL with SCE

scgeatool(sce)

%% End of DEMO_GETTING_STARTED
echo off