Mercurial > repos > chrisb > gap_all_glycan_tools
diff get_data/kegg_glycan/KEGGnotes.md @ 1:0a5e0df17054 draft default tip
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| author | chrisb |
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| date | Fri, 06 May 2016 08:05:48 -0400 (2016-05-06) |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/get_data/kegg_glycan/KEGGnotes.md Fri May 06 08:05:48 2016 -0400 @@ -0,0 +1,51 @@ + +# notes on KEGG behaviour + +Tested with Release 78.0+/05-05, May 16 (see http://rest.kegg.jp/info/genes) + +*Recommendation 1 - Do not combine AND with OR queries* +multiple complex queries are not recommended. + +*OR's on certain db's e.g. glycan, enzyme do not always return correctly* + +## Shiga toxin behaviour test +Using the shiga toxin example from http://www.genome.jp/kegg/rest/keggapi.html +/find/genes/shiga+toxin for keywords "shiga" and "toxin" +/find/genes/"shiga toxin" for keywords "shiga toxin" + +results in test-data + - test-data/shiga-toxin-example-AND + - test-data/shiga-toxin-example-AND-broken + - test-data/shiga-toxin-example-OR + - test-data/shiga-toxin-example-OR-broken + + +### AND example +/find/genes/shiga+toxin for keywords "shiga" and "toxin" +http://rest.kegg.jp/find/genes/shiga+toxin + +### OR example +/find/genes/"shiga toxin" for keywords "shiga toxin" +http://rest.kegg.jp/find/genes/"shiga%20toxin" + +### BROKEN AND +http://rest.kegg.jp/find/genes/"shiga+toxin" +If query is in put in quotes. + this result is the same as OR. + +### BROKEN OR +http://rest.kegg.jp/find/genes/shiga%20toxin +If query is not placed in quotations. + this result is the same as AND. + +## Enzyme tests + +http://rest.kegg.jp/find/enzyme/deoxy+1.1.1 AND works +http://rest.kegg.jp/find/enzyme/"deoxy%201.1.1" OR does not work +http://rest.kegg.jp/find/enzyme/"deoxy 1.1.1" OR does not work + +0 +http://rest.kegg.jp/find/enzyme/ec:2.4.99.1+ec:2.4.99.6 AND works but return nothing as no overlap +http://rest.kegg.jp/find/enzyme/"ec:2.4.99.1 ec:2.4.99.6" OR doesn't work +http://rest.kegg.jp/find/enzyme/ec:2.4.99. works +