monarch-initiative/owlsim-v3

Adding enrichment service

Merge pull request #37 from monarch-initiative/24-curie …

24 curie

[#24] removing some public setters

[#24] if no curie mapping is provided, use IRI as failover

[#24] clean up

[#24] need some cleaning

[#24] first experiment

fixed unit tests

Merge pull request #36 from monarch-initiative/33-jackson …

[#33] configure Jackson to ignore empty beans

[#33] configure Jackson to ignore empty beans

switched scicrunch to owlsim

Added parameter to allow comparison of two profiles, fixes #32

Added convenience method for comparing two query profiles, for #32 …

Call like this:

  Match pairMatch = profileMatcher.compareProfilePair(qp, tp);

To implement this, we extend the notion of the target item set
to include anonymous individuals. The target profile is treated as
an anonymous individual

wheesht

1.7

Adding enrichment to core and services

upping OWLAPI version

less chatty travis tests

organized imports - do not import experimental class not yet in GH

Added TypeFilters …

improved tests, and included compressed data for perf tests
switched to java8
switched to owlapi-v4
bumped up version of various frameworks
added additional params to services

Merge pull request #29 from balhoff/import-error …

Fixed error from import of missing class.

Adding method to recapitulate asserted homologies

Excluding a test for now …

this caused a false positive travis fail for #95

Merge branch 'master' into import-error

Removed import causing compile error.

Fixes #25

new tests

new util for reading pairwise files

Added additional documentation for multiple classes and methods. …

Created a new method that is a simplified form of the naive-bayes-FW
method, with no query blanket, primarily for test/evaluation purposes.

writers

writers

Suppressed IC Distribution test. Added new convenience methods to KB.… …

… Added new pairwise conditional probability calculator

new experimental utils

Do not precompute tables by default …

Adding experimental util for cos sim

passifying