Sami Hyypiä

Sami Hyypiä (Source: liverpoolfc.com)

Microbiome data science

  • Interactions between microbes and host
  • Sequencing data - Other omics regularly incorporated
Moreno-Indias et al. (2021) Statistical and Machine Learning Techniques in Human Microbiome Studies: Contemporary Challenges and Solutions. Frontiers in Microbiology.
(Moreno-Indias et al. 2021)

Challenges

Lack of…

  • Standardization
  • Scalability, support for multi-table data
  • Interoperability with other fields
Moreno-Indias et al. (2021) Statistical and Machine Learning Techniques in Human Microbiome Studies: Contemporary Challenges and Solutions. Frontiers in Microbiology.
(Moreno-Indias et al. 2021)

Bioconductor

Community-driven bioinformatics project

  1. Training & community support
  2. Conferences & workshops
  3. Open source software


Software

  • ~2,300 R packages
  • Review, testing, documentation

Data containers

  • The core of software
  • Structured, standardized way to manage complex data
  • Enables modular, efficient workflows