Skip to Main content Skip to Navigation
Conference papers

ChemFlow, chemometrics using Galaxy

Abstract : Infrared spectroscopy is widely used in academic research and industry as simple, fast, cheap and safe measurement tool. The infrared data are displayed as spectra, and chemometric is a science which aims at extracting informations from spectra. We are developing a comprehensive package which contains (1) a MOOC broadcasted in september 2016; (2) a chemometric tool, named ChemFlow, which is an application of Galaxy; and (3) a spectral database. We will focus on ChemFlow. The required specifications were: a free tool; a tool which recycles code from Matlab, Scilab, R, Python and C; a tool accessible via internet with new devices such as smartphones. That's why we chose Galaxy. ChemFlow is being implemented with our own functions. By now it includes most of the processing tools : import and convert our data; run chemometrics methods such as calibrations and classifications. We are very satisfied of the performances of Chemflow running on a server. Nevertheless, some issues were fixed, others are still pending: Speed performance was improved by switching the Galaxy server to Apache and PostgreSQL. Hundreds of users are expected. We plan to deploy 2 servers of 48-cores each, without knowing how ChemFlow will behave with many users submitting little tasks. The graphical toolbox in Galaxy is our main work in progress, and we are currently implementing several original visualisation tools such as R-Shiny. The development of a specific toolshed is discussed. As a summary, Galaxy is used in a new domain, chemometrics, adressed to a new user community, and will be a central platform for a new e-learning module, as a MOOC.
Document type :
Conference papers
Complete list of metadata

https://hal.archives-ouvertes.fr/hal-01837798
Contributor : Archive Ouverte Prodinra <>
Submitted on : Wednesday, June 3, 2020 - 2:36:44 AM
Last modification on : Thursday, December 17, 2020 - 9:51:34 AM
Long-term archiving on: : Wednesday, December 2, 2020 - 10:18:10 PM

File

RossardBoulet-GCC2016_1.pdf
Publisher files allowed on an open archive

Identifiers

Citation

Virginie Rossard, Jean Claude Boulet, Fabien Gogé, Eric Latrille, Jean-Michel Roger. ChemFlow, chemometrics using Galaxy. Galaxy Community Conference - GCC2016, Indiana University. USA., Jun 2016, Bloomington, United States. ⟨10.7490/f1000research.1112573.1⟩. ⟨hal-01837798⟩

Share

Metrics

Record views

253

Files downloads

42