Best Practice Handbook

Best Practice Handbook

Introduction

• About reBiND
• How to use this manual

The reBiND workflow

• An overview of the reBiND pipeline

System Installation and Administration (Technical information for administrators and IT specialists)

• Installation
• Administration
• Data Rescue - outdated software and hardware

Data Archiving (Information for content administrators and contributing scientists)

• Workflow
  • Data Preparation
    • Prepare the content for ABCD mapping: resolve abbreviations, add units, concatenate atomised scientific name, additional information from data documentation, add metadata, denormalise
    • ABCD Mapping (see BioCASE documentation) plus additional examples
  • Creating a new project and uploading data to the reBiND data portal
  • Validation and Corrections
  • Reviewing the XML file (Some notes on manual review)
  • Entering metadata
  • Publishing and searching the data

Case Studies

• Case studies with single data sets from different providers ( reBiND stories)
• General observations

Supporting data preparation

• Software Products
• Supporting_data_preparation_procedures

Technical Background

• eXist (The role of eXist in the reBiND project)
• XQuery
• Ecologial Metadata Language

Glossary

• A description of some of the terms used in this manual