Documentation MASH-FRET-1.3.2

update System equirements with correct OS and MATLAB version requirements
update Histogram analysis > Panels > State configuration with the correct BIC expression
update Transition analysis > Panels > State configuration with the correct BIC expression
update Transition analysis > Panels > State configuration with new cluster color picker
delete Transition analysis > Panels > State transition rates
create Transition analysis > Panels > Dwell time histograms
create Transition analysis > Panels > Kinetic model
update Transition analysis > Worflow with estimation of state degeneracy and inferrence of transition rate matrix and associated errors
update Output files > (*.dt) Dwell times by adding specification for .dt files exported from Transition analysis (data set simulated with the kinetic model parameters)
create Output files > (*.txt) DPH model selection
create Output files > (*.txt) Kinetic model
update Output files > (*.clst) Transition density clusters with the correct file structure and content
update Output files > (*.txt) Traces from simulation by adding the FRET state trajectories without blurring effect

create a readme.txt file for web rendering of local doc for Windows users (using bundle and jekyll)
update the Gemfile file by adding the gem just-the-docs
update the config.yml file by changing the remote theme to pmarsceill/just-the-docs to always be up-to-date with the latest version of just-the-docs
delete custom files _includes/nav.html and _layouts/default.html for the latest version of just-the-docs to take effect
update the _includes/tutorials_toc.html file and all documentation pages to be compatible with latest just-the-docs theme

RNA-FRETools / MASH-FRET