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Process Design for Natural Scientists

An Agile Model-Driven Approach

  • Book
  • © 2014

Overview

Editors:
  1. Anna-Lena Lamprecht

    1. Chair Service and Software Engineering, Institute of Computer Science, University of Potsdam, Potsdam, Germany

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  2. Tiziana Margaria

    1. Chair Software Engineering, Computer Science and Information Systems Department, University of Limerick and Lero, The Irish Software Research Center, Limerick, Ireland

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    You can also search for this editor in PubMed   Google Scholar

  • Serves as a primer for the field of scientific workflows
  • Includes an extensive number of applications and case studies in bioinformatics and geovisualization domains
  • Addresses the current topics related to big data and reproducible science
  • Can be used as a text book for students in experimental sciences

Part of the book series: Communications in Computer and Information Science (CCIS, volume 500)

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Table of contents (19 chapters)

  1. Front Matter

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  2. Framework

    1. Scientific Workflows and XMDD

      • Anna-Lena Lamprecht, Tiziana Margaria
      Pages 1-13

    2. Modeling and Execution of Scientific Workflows with the jABC Framework

      • Anna-Lena Lamprecht, Tiziana Margaria, Bernhard Steffen
      Pages 14-29

    3. The Course’s SIB Libraries

      • Anna-Lena Lamprecht, Alexander Wickert
      Pages 30-44

    4. Lessons Learned

      • Anna-Lena Lamprecht, Alexander Wickert, Tiziana Margaria
      Pages 45-64

  3. Bioinformatics Applications

    1. Protein Classification Workflow

      • Judith Reso
      Pages 65-72

    2. Data Mining for Unidentified Protein Sequences

      • Leif Blaese
      Pages 73-87

    3. Workflow for Rapid Metagenome Analysis

      • Gunnar Schulze
      Pages 88-100

    4. Constructing a Phylogenetic Tree

      • Monika Lis
      Pages 101-109

    5. Exploratory Data Analysis

      • Janine Vierheller
      Pages 110-126

    6. Identification of Differentially Expressed Genes

      • Christine Schütt
      Pages 127-139

  4. Geovisualization Applications

    1. Visualization of Data Transfer Paths

      • Christian Kuntzsch
      Pages 140-148

    2. Spotlocator – Guess Where the Photo Was Taken!

      • Marcel Hibbe
      Pages 149-160

    3. Geocoder Accuracy Ranking

      • Daniel Teske
      Pages 161-174

    4. Web-Based Map Generalization Tools Put to the Test: A jABC Workflow

      • Henriette Sens
      Pages 175-185

    5. CREADED: Colored-Relief Application for Digital Elevation Data

      • Franziska Noack
      Pages 186-199

    6. A Workflow for Computing Potential Areas for Wind Turbines

      • Tobias Respondek
      Pages 200-215

    7. Location Analysis for Placing Artificial Reefs

      • Lasse Scheele
      Pages 216-228

    8. Creation of Topographic Maps

      • Josephine Kind
      Pages 229-238

    9. GraffDok — A Graffiti Documentation Application

      • Robin Holler
      Pages 239-251
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Keywords

About this book

This book presents an agile and model-driven approach to manage scientific workflows. The approach is based on the Extreme Model Driven Design (XMDD) paradigm and aims at simplifying and automating the complex data analysis processes carried out by scientists in their day-to-day work. Besides documenting the impact the workflow modeling might have on the work of natural scientists, this book serves three major purposes: 1. It acts as a primer for practitioners who are interested to learn how to think in terms of services and workflows when facing domain-specific scientific processes. 2. It provides interesting material for readers already familiar with this kind of tools, because it introduces systematically both the technologies used in each case study and the basic concepts behind them. 3. As the addressed thematic field becomes increasingly relevant for lectures in both computer science and experimental sciences, it also provides helpful material for teachers that plan similar courses.

Reviews

From the book reviews:

“This book is part of the ‘Communications in Computer and Information Science (CCIS)’ series, which publishes peer-reviewed proceedings of conferences and workshops. … Each paper … is well written with expert-level precision and is very informative. … this book is essentially a conference proceedings composed of well-written papers for specialists.” (M. M. Tanik, Computing Reviews, January, 2015)

Editors and Affiliations

  • Chair Service and Software Engineering, Institute of Computer Science, University of Potsdam, Potsdam, Germany

    Anna-Lena Lamprecht

  • Chair Software Engineering, Computer Science and Information Systems Department, University of Limerick and Lero, The Irish Software Research Center, Limerick, Ireland

    Tiziana Margaria

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