Introduction
Meta-omics methods aim to simultaneously analyse the entire multi-species potential and realised functional capacity of a biological sample — taxonomically and functionally characterising all organisms and their activity in a community.
The aims of this interest group are:
- Coordinating compatibility between existing and potential meta-omic nf-core pipelines
- Implementing semi-‘chaining’ of sequential pipelines
- Developing standard parameters for different sub-disciplines (e.g. microbiome analysis) for each pipeline
- Documenting usage of “primary” meta-omic pipelines (createtaxdb, ampliseq, eager, taxprofiler, mag, metatdenovo) followed by complementary analyses with “secondary” pipelines (e.g. funcscan, phageannotator, phyloplace, rnaseq, differentialabundance)
Other activities include:
- Benchmarking meta-omic pipelines using relevant datasets (e.g. CAMI2), or reads generated using #readsimulator
- Adding nf-tests to meta-omic pipelines
- Reducing functional redundancy between pipelines
Activities
The group holds monthly meetings with developers and users to identify and discuss the most relevant problems related to meta-omics with nf-core pipelines. Activities also include presentations and discussions from topic-experts, tutorials, workshops, and demo-days of nf-core pipelines.
You can find ideas and planned work on our GitHub project board, and browse past meeting notes on HackMD.
How to join
Join the nf-core Slack and find us in the #meta-omics channel.