PANTHER Tree Grafter Use this function to retrieve a PANTHER family's tree topology information with a node corresponding to your sequence grafted in the best location in that tree.
For more information, see: TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations
rba_panther_tree_grafter(protein_seq, target_organisms = NA, ...)
protein_seq |
A character string with the protein's sequence. Maximum allowed sequence length is 50kb. |
target_organisms |
(numeric) NCBI taxon ID(s) to filter the results.
run |
... |
rbioapi option(s). Refer to |
A list containing PANTHER tree topology information.
"GET http://www.pantherdb.org/services/oai/pantherdb/graftsequence"
Mi, H., Muruganujan, A., Ebert, D., Huang, X., & Thomas, P. D. (2019). PANTHER version 14: more genomes, a new PANTHER GO-slim and improvements in enrichment analysis tools. Nucleic acids research, 47(D1), D419-D426.
Mi, H., Muruganujan, A., Huang, X., Ebert, D., Mills, C., Guo, X., & Thomas, P. D. (2019). Protocol Update for large-scale genome and gene function analysis with the PANTHER classification system (v. 14.0). Nature protocols, 14(3), 703-721.
Other "PANTHER":
rba_panther_enrich(),
rba_panther_family(),
rba_panther_homolog(),
rba_panther_info(),
rba_panther_mapping(),
rba_panther_ortholog()
rba_panther_tree_grafter("MKVLWAALLVTFLAGCQAKVEQAVETE")Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.