pitagora-network.github.io

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新海 Shinkai

• aim: Develop valiant-calling pipeline on Galaxy-envilonment
  • the pipeline of some parts are composed by GATK
  • so I try to develop GATK4-wrapper on Galaxy
• what I did:
  • Bug fix of already_made prototype wapper
  • Check the usage-difference between GATK4 and GATK3
  • Check and prepare test-data
  • Develop GATK4_BaseRecalibrator_wrapper
  • Develop GATK4_HaplotypeCaller_wrapper
  • Develop GATK4_on_Docker_HaplotypeCaller_wrapper

志波 Shiwa

• Develop MinION_tool_wrapper
• Develop albacore_wrapper
• Develop NanoPlot_wrapper

鈴木 Suzuki

• Data analysis of Microbiome of the Built Environment (MoBE)
  • Analyses of bacteria in built environments, including Clostridium difficile.
  • Analyses of urban metagenomes (MetaSUB/CAMDA)
    • Phylogenetic diversity measurement using different input data for PhyloSift followed by guppy.
    • Reproducibility testing of NYC metagenomes Afshinekoo et al. (2015)

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Reproducibility testing Afshinekoo et al. (2015)](/File:Talk_2017-09-15.ppt_p9.jpg “wikilink”)