README.md

In cherkaos/MetabToPathways: Query metabolites to find their pathways, for multiple databases (Kegg, SMPDB, HMDB and Biocyc)

MetabToPathways

R interface to query Pathway Databases : KEGG, Biocyc, SPMDB and HMDB

KEGG

Using Kegg Id of a compound, get his pathways.

Organism specific : multiorganism (map), human(hsa), ecoli(eco), bacillus(bsu), mouse (mmu), rat(rno)

BIOCYC

Using Biocyc Id of a compound, get his pathways.

Organism specific: multiorganism (metacyc), human(humancyc), ecoli(ecocyc), bacillus(bsubcyc)

Small Molecule Pathway Database (SMPDB)

Using Name, HMDB Id, Kegg Id, ChEBI Id or Drugbank Id of a compound, get his pathways.

Human specific

Human Metabolome Database (HMDB)

Using HMDB Id of a compound, get is pathways, synonyms, cellular location, tissue location and compound class.

Human specific

cherkaos/MetabToPathways documentation built on May 13, 2019, 3:54 p.m.