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avatar for Arthur Eschenlauer

Arthur Eschenlauer

University of Minnesota
Postdoc
Twin Cities, MN
Poster Abstract:
Untargeted metabolomics contrasts metabolome-scale analyses of samples without first identifying individual metabolites. Workflow4Metabolomics (W4m) provides a suite of Galaxy tools for untargeted metabolomics including univariate and multivariate statistical tools and tools for preprocessing LC-MS, GC-MS, and NMR spectra. W4m Data Subset (w4mclassfilter) conditions data for statistical analysis by providing:
- feature- and sample-selection;
- metadata-filtering;
- intensity-thresholding;
- log-transformation;
- elimination of zero-variance data;
- imputation of missing values to zero.

We have created four additional tools to simplify or extend the use of W4m in our lab: W4m Data Subset, OPLS-DA Contrasts, Join +/- Ions, and w4mkmeans. We have also "adopted" the Query Tabular tool to further simplify and extend our data workflows. The tools are available in the public Galaxy Toolshed.
We demonstrate how these tools complement W4m with a data-processing workflow assessing the effect of pathogen inoculation on resin-collection by honey bee colonies.
Saturday, June 25
 

9:00am

7:00pm

 
Sunday, June 26
 

8:00am

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11:30am

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Monday, June 27
 

9:00am

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Tuesday, June 28
 

9:00am

9:15am

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P01: ELIXIR: a distributed infrastructure for life-science information IMU SolariumFrederik Coppens P03: Using Galaxy with Jetstream IMU SolariumEnis Afgan • Jeremy Fischer P05: Advantages and Challenges of Using Galaxy CloudMan within an Integrated Data Analysis and Visualization Platform IMU SolariumIlya Sytchev P09: A Galaxy Interactive Environment for exploring the Neo4J Graph Database IMU SolariumPeter Van Heusden • Lose Thoba P11: Apollo: Collaborative Manual Annotation for Genomic Sequencing Projects IMU SolariumNathan Dunn P13: Galaxy as a Platform for Genome Annotation and Scalable Big Data Training IMU SolariumRémi Marenco P15: MYcrobiota: An open-source, user-friendly Galaxy application for microbiota determination and dynamic reporting from 16S sequences IMU SolariumSaskia Hiltemann P17: FROGS: Find Rapidly OTU with Galaxy Solution IMU SolariumYvan Le Bras P19: Interaction Analysis of Vancomycin-Resistome from RNA-seq Data using Galaxy and Functional Examination of sRNA241 in S. aureus IMU SolariumDevika Subramanian P21: The TRUElncRNA workflow: A Galaxy based workflow for identification of novel and known high confidence long non-coding RNAs. IMU SolariumMohammad Heydarian P23: A Multi-omics Visualization Platform (MVP) Plug-in for Galaxy-based Applications IMU SolariumJJ Johnson P25: Recent developments and new directions for the Galaxy-P project IMU SolariumTim Griffin P27: GeneSeqToFamily: the Ensembl GeneTree pipeline as a Galaxy workflow IMU SolariumNicola Soranzo D01: Demonstrating Galaxy with Jetstream IMU SolariumEnis Afgan • Jeremy Fischer

4:25pm

4:45pm

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7:00pm

 
Wednesday, June 29
 

9:10am

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