Tools

Python package

Package in development

• kegg2bipartitegraph.
  A tool to reconstruct metabolic bipartite graph using KEGG and different inputs (eggnog-mapper results, Kofam-Koala, KEGG organisms).
  

• esmecata.
  EsMeCaTa: Estimating Metabolic Capabilties from Taxonomic annotations.
  

• aucome.
  AUtomatic COmparison of MEtabolism.
  

• metage2metabo.
  From annotated genomes to metabolic screening in large scale microbiotas.
  

• mpwt: Pathway-Tools multiprocessing package.
  A little package to launch multiple runs of Pathway-Tools on different genomes, using genbank files.
  

• pathmodel.
  Prototype applying the metabolic pathway drift hypothesis to infer ab initio reaction using known reactions.
  

Stale package

• gff_to_gbk.
  Draft script to create GenBank from GFF file.
  A specific variant using eggnog-mapper results has been developed: emapper_to_gbk.
  

Syntax Highlight

• asp-syntax-highlight.
  A syntax highlighter for Answer Set Programming on Visual Studio Code.
  The extenstion is available on the VS Code market.