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Table 1 Tools for the analysis of fluorescent reporter gene data (names in bold)

From: WellInverter: a web application for the analysis of fluorescent reporter gene data

Tool Method Implementation Functionalities
BaSylica web server [19] 1 Kalman filtering Wamp, mySQL, R Background correction, computation of promoter activity, graphical user interface
Plate reader package [21, 52] 2 Spectral unmixing, Gaussian processes Python Background correction, computation of reporter concentration and growth rate
PromAct package [23] 3 Smoothing splines R Computation of promoter activity
WellInverter web server [22] 4 Linear inversion JavaScript, Python Background correction, computation of growth rate, promoter activity, and reporter/protein concentration, graphical user interface
WellReader package [46] 5 Smoothing splines Matlab Background correction, computation of growth rate, promoter activity, and reporter/protein concentration, graphical user interface
  1. 1 http://genome.jouy.inra.fr/basylica
  2. 2 http://swainlab.bio.ed.ac.uk/software/platereader/
  3. 3 https://github.com/soumyakannan/promact
  4. 4 https://team.inria.fr/ibis/wellinverter/
  5. 5 https://team.inria.fr/ibis/wellreader-analysis-of-fluorescence-and-luminescence-reporter-gene-data/
  6. Decription of some tools and comparison of key functionalities