mediKanren
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webyrd
Proof-of-concept for reasoning over the SemMedDB knowledge base, using miniKanren + heuristics + indexing.
I know that medikanren's server is being rebuilt. This is a reminder that when that is complete, we need an ITRB deployment in the prod environment, correctly annotated in the...
Benchmark exercise: ``` (cd medikanren && racket) (require xrepl) (require "db.rkt") (require "common.rkt") (load-databases #t) (time (enter! "../contrib/medikanren/use-cases/PMI-20-10-Il1R1-case-reviews.rkt")) ; this is the time measurement shown ``` Database list: ``` covid19...
I am building index for semmed database. The sample_semmed.csv could be run successfully. But the whole data exported from 'PREDICATION' does not work. Please see the error in the attachement....
I'm trying to use `mediKanren` with the entire `SemMedDB`. I obtained the source db and created a `.csv` following the same format as indicated in `code/sample_semmed.csv`, at about 10GB. Everything...
Searching for 'beta-catenin' does not return 'beta catenin', although perhaps it should. Searching for 'betacatenin' returns nothing. Consider using edit distance as well.
A good first cut would be to important INHIBITS/STIMULATES relationships on genes/targets.
So I've started porting code/csv-semmed-ordered-unique-enum.rkt to rust. It works on the sample_semmed.csv On the semmedDB page I am seeing a ~2GB PREDICATION gzipped sql dump. Can you confirm this is...
For the reasoners- you may wish to examine licensing as a criteria for inclusion. You can request license evaluation if you are uncertain here: http://reusabledata.org/ https://github.com/reusabledata/reusabledata/issues/new GitHub Build software better,...
We want to add resources like biocyc/metacyc. When working on different aspects of the phenotype for a disease with an unknown genetic cause, it may be useful to do "pathway...