-
-
Save jimallman/966bff09c95a25bce990 to your computer and use it in GitHub Desktop.
Find trees/studies containing a given taxon (is this correct?)
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
/* | |
Here's a curl call (results below) to search for trees containing Mammalia: | |
curl -X POST http://api.opentreeoflife.org/oti/v1/singlePropertySearchForTreeNodes -H "content-type:application/json" -d '{"property":"ot:ottTaxonName", "value":"Mammalia", "verbose":"true"}' | |
For just the element IDs, omit the "verbose" argument or set it to "false". | |
To skip node-level results and just see matching trees and study information, use singlePropertySearchForTrees instead: | |
curl -X POST http://api.opentreeoflife.org/oti/v1/singlePropertySearchForTrees -H "content-type:application/json" -d '{"property":"ot:ottTaxonName", "value":"Mammalia", "verbose":"false"}' | |
*/ | |
{ | |
"matched_studies" : [ { | |
"ot:studyPublicationReference" : "Leigh J., Susko E., Baumgartner M., & Roger A. 2007. Testing Phylogenetic Congruence in Phylogenomic Analysis. Systematic Biology, 57(1): 104-115.", | |
"is_deprecated" : false, | |
"ot:studyYear" : 2007, | |
"matched_trees" : [ { | |
"is_deprecated" : false, | |
"ot:branchLengthMode" : "ot:substitutionCount", | |
"matched_nodes" : [ { | |
"ot:isLeaf" : true, | |
"ot:ottId" : 244265, | |
"ot:treebaseOTUId" : "Tl28251", | |
"ot:ottTaxonName" : "Mammalia", | |
"ot:originalLabel" : "Mammalia" | |
} ], | |
"ot:branchLengthDescription" : "", | |
"ot:studyId" : "309", | |
"oti_tree_id" : "309_tree255" | |
}, { | |
"is_deprecated" : false, | |
"ot:branchLengthMode" : "ot:substitutionCount", | |
"matched_nodes" : [ { | |
"ot:isLeaf" : true, | |
"ot:ottId" : 244265, | |
"ot:treebaseOTUId" : "Tl28251", | |
"ot:ottTaxonName" : "Mammalia", | |
"ot:originalLabel" : "Mammalia" | |
} ], | |
"ot:branchLengthDescription" : "", | |
"ot:studyId" : "309", | |
"oti_tree_id" : "309_tree254" | |
}, { | |
"is_deprecated" : false, | |
"ot:branchLengthMode" : "ot:substitutionCount", | |
"matched_nodes" : [ { | |
"ot:isLeaf" : true, | |
"ot:ottId" : 244265, | |
"ot:treebaseOTUId" : "Tl28251", | |
"ot:ottTaxonName" : "Mammalia", | |
"ot:originalLabel" : "Mammalia" | |
} ], | |
"ot:branchLengthDescription" : "", | |
"ot:studyId" : "309", | |
"oti_tree_id" : "309_tree256" | |
}, { | |
"is_deprecated" : false, | |
"ot:branchLengthMode" : "ot:substitutionCount", | |
"matched_nodes" : [ { | |
"ot:isLeaf" : true, | |
"ot:ottId" : 244265, | |
"ot:treebaseOTUId" : "Tl28251", | |
"ot:ottTaxonName" : "Mammalia", | |
"ot:originalLabel" : "Mammalia" | |
} ], | |
"ot:branchLengthDescription" : "", | |
"ot:studyId" : "309", | |
"oti_tree_id" : "309_tree257" | |
} ], | |
"ot:studyPublication" : "http://dx.doi.org/10.1080/10635150801910436", | |
"ot:curatorName" : "Rick Ree", | |
"ot:studyId" : "309", | |
"ot:dataDeposit" : "http://purl.org/phylo/treebase/phylows/study/TB2:S1881" | |
}, { | |
"ot:studyPublicationReference" : "Evans, N.M., & Cartwright P. 2010. The phylogenetic position of Myxozoa: exploring conflicting signals in phylogenomic and ribosomal datasets. Molecular Biology and Evolution 27 (12): 2733-2746.", | |
"is_deprecated" : false, | |
"ot:focalCladeOTTTaxonName" : "Metazoa", | |
"ot:studyYear" : 2010, | |
"matched_trees" : [ { | |
"is_deprecated" : false, | |
"ot:tag" : "Delete me", | |
"ot:branchLengthMode" : "ot:substitutionCount", | |
"matched_nodes" : [ { | |
"ot:isLeaf" : true, | |
"ot:ottId" : 244265, | |
"ot:treebaseOTUId" : "Tl294427", | |
"ot:ottTaxonName" : "Mammalia", | |
"ot:originalLabel" : "Mammalia" | |
} ], | |
"ot:branchLengthDescription" : "", | |
"ot:studyId" : "2418", | |
"oti_tree_id" : "2418_tree5103" | |
}, { | |
"is_deprecated" : false, | |
"ot:tag" : "choose me", | |
"ot:branchLengthMode" : "ot:substitutionCount", | |
"matched_nodes" : [ { | |
"ot:isLeaf" : true, | |
"ot:ottId" : 244265, | |
"ot:treebaseOTUId" : "Tl294427", | |
"ot:ottTaxonName" : "Mammalia", | |
"ot:originalLabel" : "Mammalia" | |
} ], | |
"ot:branchLengthDescription" : "", | |
"ot:studyId" : "2418", | |
"oti_tree_id" : "2418_tree6152" | |
} ], | |
"ot:studyPublication" : "http://dx.doi.org/10.1093/molbev/msq159", | |
"ot:curatorName" : "Chris Owen", | |
"ot:focalClade" : 691846, | |
"ot:studyId" : "2418", | |
"ot:dataDeposit" : "http://purl.org/phylo/treebase/phylows/study/TB2:S10454" | |
} ] | |
} |
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment