Welcome to Seiðr’s documentation!

Seiðr is a toolkit to create crowd networks. We provide fast implementations of several highly regarded algorithms as well as utility programs to create and explore crowd networks.

If you have any questions, contact me at: bastian.schiffthaler@umu.se

Getting Started

• Building Seidr
• Getting Started

Basics

• The Crowd Network Idea
• Importing text based formats into Seidr
• Aggregating networks into a crowd network
• Estimating a hard threshold for a given seidr network
• Calculating a Network Backbone
• Getting network statistics

Algorithms

• ANOVERENCE
• ARACNE
• CLR
• Correlation
• Ensemble methods
• GENIE3
• NARROMI
• Partial Correlation
• PLSNET
• TIGRESS
• TOM Similarity

Workflows

• Comparing networks of different species with seidr
• Running seidr with nextflow

Implementation Details

• Using multiple processors to infer networks
• SeidrFiles

References

• References

Indices and tables

• Index
• Module Index
• Search Page