Welcome to Seidr’s documentation!

Seidr 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

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

Installing seidr

• Building Seidr

Algorithms

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

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