Pipeline Core

• synolog - This is the core Synolog program that detects conserved synteny and assignes orthologs. [details]

Species Data Cache

• synolog_cctl.py - Add, update, or remove genome data from the species data cache. [details]
• synolog_blastctl.py - run BLAST between species in the species data cache. [details]
• synolog_linkint.py - link BLAST runs between different species assemblies. [details]

Pipeline Execution

• synolog_run.py - executes Synolog on a particular subset of species from the stored data cache. [details]

Utility Programs

• synolog_fasta.py - export ortholog data in FASTA format for different downstream analyses. [details]
• synolog_info.py - view BLAST and ortholog data from a particular Synolog run. [details]
• synolog_plot.py - plot conserved synteny between species. [details]