- The goal of this tool is to provide a quick visualization of change of instrument parameters (temperature, humidity, current, etc.) over time.
- This tool requires instrument parameter log files as input. The mass spectrometer that this script is based on is a Thermo Scientific Q-Exactive Plus instrument. It may also work with other Thermo instrument that generate similar system parameter log file.
- Upload instrument log files
- this file is typically located in C:\Xcalibur\system\Exactive\log\ on your instrument PC
- file names start with "InstrumentTemperature--", followed by yyyy-mm-dd).
- be careful not to select other file names. You can select one or more files.
- Check out this file for an example of the log file
- Select the parameters that you would like to visualize
- (Optional) select a date range and/or dates to exclude from visualization. This option is useful for when you have a known reason for why instrument parameters change substantially (e.g. preventative maintenance)
- Save the image or download the dataset if necessary
Check out this link if you need help with installing R and RStudio: https://rstudio-education.github.io/hopr/starting.html
- Download code: Code - Download ZIP
- Open the R project in Rstudio
- Click RunApp
- Download code: Code - Download ZIP
- Unzip file and open the R project in Rstudio
- Click "Publish the application or document" (the button next to RunApp)
You can try the Shiny app here: https://schen19.shinyapps.io/01_MS_Parameter_Monitoring/. However, it is not recommended to rely on this website because it is a free account and cannot handle too much traffic. It is better if you run the Shiny app locally or in your own deployment if you are a heavy user of this tool.
Plotting ambient temperature
- Please make sure that you are uploading the correct log files. There are usually some other files that are not log files in the same folder. Make sure you don't accidentally include those files in your uploads.