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→Example of how access to the Pharmacolyzer through a REST API could look like
In order to get personalized medication recommendations for a patient that has been sequenced, the Pharmacolyzer does multiple queries to the [[Pharmacoracle]].
The starting point is a JSON file with a representation of the patient VCF in Manchester syntax provided by the [[Pharmacotyper]].
We have coined the verb ''to pharmacolyze'' for the action of the Pharmacolyzer
===Examples Getting access to pharmacolyzis of usesensitive data===Patient VCFs are sensitive data, and storage of VCF data and [[Pharmacotyper|pharmacotyping]] are preformed on secure servers. It may also be sensible to run the pharmacolyzer in a facility for sensitive data, and only export the final ''pharmacolysis''. Access to the final PGx analysis could be given through a REST API, and we describe one approach in the section below. ===Example of how access to the Pharmacolyzer through a REST API could look like===We have downloaded a VCF with samples from the [http://grch37.ensembl.org/Homo_sapiens/Tools/DataSlicer?db=core 1000 genomes project]. Four samples from the VCF was then [[Pharmacotyper|pharmacotyped]] and stored in a JSON file called ''merged_patient.json''which is now accessible to the Pharmacolyzer at pgx.no. Pharmacolysis can be performed for the following drugs and patient samples:
{| class="wikitable"
|-
|| NA19461 <br> NA19068 <br> NA20754 <br> NA21137
|}
by running commands on the form
<pre>curl https://www.pgx.no/api/pharmacolyzer -d "patient_name=merged_patient&drugs=azathioprine&samples=NA19461&samples=NA21137"</pre>
from the command line.
For pretty printing, the following can be used:
<pre>curl https://www.pgx.no/api/pharmacolyzer -d "patient_name=merged_patient&drugs=azathioprine&samples=NA19461" | python -m json.tool </pre>
Note that this is quite slow (20-30 seconds, especially the first query, when the OWL reasoner process is being set up, later queries may become as little as 4-5 seconds, which is still a bit slow for such a simple program)