Welcome to RTMet’s documentation!¶

What is RTMet ?¶

RTMet is a scientific software which aims to facilitate real-time monitoring of metabolites and reaction rates in a bioreactor.

At its core, it is a data pipeline for targeted metabolomics that automatically processes raw data coming from a mass spectrometer, find metabolites, estimate fluxes, and send a feedback command to the bioreactor.

The main goals are:

Allowing researchers and engineers to monitor in real time what is happening in the bioreactor, at the chemical level.
Better control over the growth of micro-organisms and the bioprocesses at play, by automatically changing the bioreactor parameters.

Features¶

Automatically fetch .raw files coming from the mass spectrometer.
Process FIA-HRMS data to find metabolites, estimate their concentration and reaction rates.
Visualize the results in real-time.

Is RTMet for you ?¶

For using RTMet, a few assumptions must be met:

The data must be produced by flow injection analysis (FIA) coupled with high-resolution mass spectrometry (HRMS).
Your data represents a time series of raw spectra.

If you want to use RTMet for real-time monitoring, there are a few additional requirements:

Have automated sampling from the bioreactor and data acquisition using the mass spectrometer.
Setup a connection or automatically transfer files from the mass spectrometer to the server where RTMet is running.
Have a running InfluxDB instance to store and visualize the results.