Gilda

What's Changed
* Improve NER with word tokenization by bgyori in https://github.com/gyorilab/gilda/pull/146
* Use coordinates in custom sentence split function by kkaris in https://github.com/gyorilab/gilda/pull/147
* NER Benchmark Script by galileosteinberg in https://github.com/gyorilab/gilda/pull/148
* Update tests.yml to use new punkt file from NLTK by cmungall in https://github.com/gyorilab/gilda/pull/151

**Full Changelog**: https://github.com/gyorilab/gilda/compare/1.3.0...1.4.0

What's Changed
* Web and REST service expansion to include NER annotation by galileosteinberg in https://github.com/gyorilab/gilda/pull/145
* Implement context text for annotation and fix capitalization by bgyori in https://github.com/gyorilab/gilda/pull/141
* Make annotation return a list of Annotation object with a list of ScoredMatches by bgyori in https://github.com/gyorilab/gilda/pull/143
* Improve MeSH mappings by bgyori in https://github.com/gyorilab/gilda/pull/140
* Add an extra word to README by bgyori in https://github.com/gyorilab/gilda/pull/144

**Full Changelog**: https://github.com/gyorilab/gilda/compare/1.2.1...1.3.0

What's Changed
* Allow for 'classic' gunicorn running by kkaris in https://github.com/gyorilab/gilda/pull/138
* Upgrade for Python 3.12 compatibility by bgyori in https://github.com/gyorilab/gilda/pull/139

New Contributors
* kkaris made their first contribution in https://github.com/gyorilab/gilda/pull/138

**Full Changelog**: https://github.com/gyorilab/gilda/compare/1.2.0...1.2.1

What's Changed
* Loading remote indexes by cthoyt in https://github.com/gyorilab/gilda/pull/132
* Add default grounding resources to README by bgyori in https://github.com/gyorilab/gilda/pull/135

**Full Changelog**: https://github.com/gyorilab/gilda/compare/1.1.0...1.2.0

What's Changed
* Enable returning all NER results by cthoyt in https://github.com/gyorilab/gilda/pull/120
* Include Python 3.11 in testing by cthoyt in https://github.com/gyorilab/gilda/pull/121
* Make web UI dependencies optional by cthoyt in https://github.com/gyorilab/gilda/pull/119
* Update flask and flask-restx dependencies by cthoyt in https://github.com/gyorilab/gilda/pull/125
* Update docs by cthoyt in https://github.com/gyorilab/gilda/pull/124
* Expose `dump_terms` from top level by cthoyt in https://github.com/gyorilab/gilda/pull/126
* Update terms with latest resources by bgyori in https://github.com/gyorilab/gilda/pull/128
* Improve safety of NER build by cthoyt in https://github.com/gyorilab/gilda/pull/127
* Add convenience function `Grounder.ground_best` by cthoyt in https://github.com/gyorilab/gilda/pull/129
* Make instantiation of Grounder more flexible by cthoyt in https://github.com/gyorilab/gilda/pull/130
* Update footer text by cthoyt in https://github.com/gyorilab/gilda/pull/131


**Full Changelog**: https://github.com/gyorilab/gilda/compare/1.0.0...1.1.0

What's Changed
* Update resources by bgyori in https://github.com/indralab/gilda/pull/102
* Fix double whitespace and typo in docstring by EFord36 in https://github.com/indralab/gilda/pull/104
* Move `filter_out_duplicates` function by cthoyt in https://github.com/indralab/gilda/pull/103
* Improve depluralization by bgyori in https://github.com/indralab/gilda/pull/105
* Add form to matches page by cthoyt in https://github.com/indralab/gilda/pull/90
* Strip whitespaces for input by bgyori in https://github.com/indralab/gilda/pull/106
* Add pandas DataFrame utilities by cthoyt in https://github.com/indralab/gilda/pull/107
* Add function to yield Terms from file by bgyori in https://github.com/indralab/gilda/pull/108
* Enable passing custom terms to web application by cthoyt in https://github.com/indralab/gilda/pull/109
* Make requirement `obonet` optional by cthoyt in https://github.com/indralab/gilda/pull/110
* Fix invalid Adeft IDs by bgyori in https://github.com/indralab/gilda/pull/111
* Improve filtering of duplicates by cthoyt in https://github.com/indralab/gilda/pull/112
* Update signature of annotate() by cthoyt in https://github.com/indralab/gilda/pull/114
* Return ScoredMatch objects in annotate() by cthoyt in https://github.com/indralab/gilda/pull/113
* Add NER by cthoyt, bgyori and kkaris in https://github.com/indralab/gilda/pull/115
* Make term prefix prioritization configurable by cthoyt in https://github.com/indralab/gilda/pull/116
* Move dump_terms() by cthoyt in https://github.com/indralab/gilda/pull/117
* Add NER tutorial and update documentation configuration by cthoyt in https://github.com/indralab/gilda/pull/118

**Full Changelog**: https://github.com/indralab/gilda/compare/0.10.3...1.0.0