reactome / analysis-service Goto Github PK
View Code? Open in Web Editor NEWA RESTful API to access pathway analysis tools
Home Page: https://reactome.org/AnalysisService/
A RESTful API to access pathway analysis tools
Home Page: https://reactome.org/AnalysisService/
Thank you very much for the excellent Reactome tools. I am preparing to use them on my data.
Upon preparation, I see that this is frequently true not only in the results from the analysis service, but also from the Pathway Analysis GUI:
Entities_ratio is often not equal to num_Entities_found/num_Entities_total
Reactions_ratio is often not equal to num_Reactions_found/num_Reactions_total
Is the ratio supposed to be calculated using num_found and num_total? Or is the ratio some other equation? If so, what is the equation?
Thank you again for the Reactome database and the tools to access the information within.
Thank you very much for your excellent tools and providing multiple ways to access the Reactome data.
I am running the POST /identifiers/for example using the UniProt example data downloaded into a local file.
$ curl -X POST "https://reactome.org/AnalysisService/identifiers/form?interactors=false&pageSize=20&page=1&sortBy=ENTITIES_PVALUE&order=ASC&resource=TOTAL&pValue=1&includeDisease=true" -H "accept: application/json" -H "content-type: multipart/form-data"
{"code":400,"reason":"Bad Request","messages":["Could not parse multipart servlet request; nested exception is org.apache.commons.fileupload.FileUploadException: the request was rejected because no multipart boundary was found"]}
The file containing the IDs is "UniProt.txt" and is stored on my PC locally. I do not see "UniProt.txt" anywhere in the curl example. Should the filename be there? If yes, what is the format of the filename in the curl command?
Can you provide a curl example using a local file which runs, so I can mimic it?
Thank you again for the great tool set and for an amazing database.
DV
FYI: I am seeing a difference between the results of pathway analyses done through the GUI on the web and the results run and downloaded from the API on the same data.
This analysis was done using the UniProt data downloaded from https://reactome.org/PathwayBrowser/#TOOL=AT
The inputs for both analyses are:
For the run with the API, includeDisease= true. I am not sure how to set that for the GUI on the web.
A declarative, efficient, and flexible JavaScript library for building user interfaces.
๐ Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
An Open Source Machine Learning Framework for Everyone
The Web framework for perfectionists with deadlines.
A PHP framework for web artisans
Bring data to life with SVG, Canvas and HTML. ๐๐๐
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
Some thing interesting about web. New door for the world.
A server is a program made to process requests and deliver data to clients.
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Some thing interesting about visualization, use data art
Some thing interesting about game, make everyone happy.
We are working to build community through open source technology. NB: members must have two-factor auth.
Open source projects and samples from Microsoft.
Google โค๏ธ Open Source for everyone.
Alibaba Open Source for everyone
Data-Driven Documents codes.
China tencent open source team.