PMAnalyzer: A new web interface for bacterial growth curve analysis

Daniel A. Cuevas, Robert A. Edwards

Research output: Contribution to journalArticle

5 Citations (Scopus)

Abstract

Bacterial growth curves are essential representations for characterizing bacteria metabolism within a variety of media compositions. Using high-throughput, spectrophotometers capable of processing tens of 96-well plates, quantitative phenotypic information can be easily integrated into the current data structures that describe a bacterial organism. The PMAnalyzer pipeline performs a growth curve analysis to parameterize the unique features occurring within microtiter wells containing specific growth media sources. We have expanded the pipeline capabilities and provide a user-friendly, online implementation of this automated pipeline. PMAnalyzer version 2.0 provides fast automatic growth curve parameter analysis, growth identification and high resolution figures of sample-replicate growth curves and several statistical analyses. Availability and Implementation:PMAnalyzer v2.0 can be found at https://edwards.sdsu.edu/pmanalyzer/. Source code for the pipeline can be found on GitHub at https://github.com/dacuevas/PMAnalyzer. Source code for the online implementation can be found on GitHub at https://github.com/dacuevas/PMAnalyzerWeb.

Original languageEnglish
Pages (from-to)1905-1906
Number of pages2
JournalBioinformatics
Volume33
Issue number12
DOIs
Publication statusPublished - 15 Jun 2017
Externally publishedYes

Bibliographical note

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

Keywords

  • Bacterial growth curve
  • Growth analysis
  • Web interface
  • PMAnalyzer

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