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matentzn committed Mar 28, 2023
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2 changes: 1 addition & 1 deletion docs/metrics/doid.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/doid.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-24/doid.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-28/doid.owl

### Entities and axioms

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2 changes: 1 addition & 1 deletion docs/metrics/icd10cm.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/icd10cm.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-24/icd10cm.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-28/icd10cm.owl

### Entities and axioms

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2 changes: 1 addition & 1 deletion docs/metrics/icd10who.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/icd10who.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-24/icd10who.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-28/icd10who.owl

### Entities and axioms

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2 changes: 1 addition & 1 deletion docs/metrics/ncit.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/ncit.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-24/ncit.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-28/ncit.owl

### Entities and axioms

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20 changes: 10 additions & 10 deletions docs/metrics/omim.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/omim.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-24/omim.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-28/omim.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 13 |
| Axioms | 369157 |
| Logical axioms | 35634 |
| Classes | 31205 |
| Axioms | 369825 |
| Logical axioms | 35719 |
| Classes | 31254 |
| Object properties | 6 |
| Data properties | 0 |
| Individuals | 0 |
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| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 302303 |
| Declaration | 31220 |
| SubClassOf | 35634 |
| AnnotationAssertion | 302837 |
| Declaration | 31269 |
| SubClassOf | 35719 |


#### Entity namespaces: axiom counts by namespace

| Metric | Value |
| ------ | ----- |
| prefix_unknown | 29765 |
| prefix_unknown | 29814 |
| oboInOwl | 3 |
| owl | 2 |
| xsd | 1 |
Expand All @@ -60,8 +60,8 @@

| Metric | Value |
| ------ | ----- |
| Class | 102467 |
| ObjectSomeValuesFrom | 14050 |
| Class | 102686 |
| ObjectSomeValuesFrom | 14071 |


More information about the source can be found [in the documentation](../sources.md). The raw data (ontology metrics) can be found [on GitHub](https://github.com/monarch-initiative/mondo-ingest/tree/main/src/ontology/metadata).
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2 changes: 1 addition & 1 deletion docs/metrics/ordo.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/ordo.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-24/ordo.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2023-03-28/ordo.owl

### Entities and axioms

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4 changes: 2 additions & 2 deletions docs/reports/mapped_deprecated.md
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# Mapped deprecated terms
| Ontology | Tot deprecated in Mondo |
|:--------------------------------------------|--------------------------:|
| [OMIM](./mapped_deprecated_omim.md) | 90 |
| [ORDO](./mapped_deprecated_ordo.md) | 619 |
| [OMIM](./mapped_deprecated_omim.md) | 98 |
| [ORDO](./mapped_deprecated_ordo.md) | 620 |
| [NCIT](./mapped_deprecated_ncit.md) | 33 |
| [DOID](./mapped_deprecated_doid.md) | 26 |
| [ICD10WHO](./mapped_deprecated_icd10who.md) | 0 |
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8 changes: 8 additions & 0 deletions docs/reports/mapped_deprecated_omim.md
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| MONDO:0008126 | OMIM:164891 | MONDO:equivalentObsolete |
| MONDO:0008204 | OMIM:168850 | MONDO:equivalentObsolete |
| MONDO:0008289 | OMIM:607595 | MONDO:equivalentObsolete |
| MONDO:0008409 | OMIM:181430 | MONDO:equivalentObsolete |
| MONDO:0008415 | OMIM:181515 | MONDO:equivalentObsolete |
| MONDO:0008448 | OMIM:182920 | MONDO:equivalentObsolete |
| MONDO:0008490 | OMIM:277610 | MONDO:equivalentObsolete |
| MONDO:0008523 | OMIM:609464 | MONDO:equivalentObsolete |
| MONDO:0008774 | OMIM:245130 | MONDO:equivalentObsolete |
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| MONDO:0009302 | OMIM:233430 | MONDO:equivalentObsolete |
| MONDO:0009307 | OMIM:233670 | MONDO:equivalentObsolete |
| MONDO:0009535 | OMIM:247440 | MONDO:equivalentObsolete |
| MONDO:0009654 | OMIM:252700 | MONDO:equivalentObsolete |
| MONDO:0009679 | OMIM:253900 | MONDO:equivalentObsolete |
| MONDO:0010045 | OMIM:270710 | MONDO:equivalentObsolete |
| MONDO:0010205 | OMIM:278100 | MONDO:equivalentObsolete |
| MONDO:0010258 | OMIM:300987 | MONDO:equivalentObsolete |
| MONDO:0010291 | OMIM:300274 | MONDO:equivalentObsolete |
| MONDO:0010295 | OMIM:300301 | MONDO:equivalentObsolete |
| MONDO:0010327 | OMIM:300220 | MONDO:equivalentObsolete |
| MONDO:0010340 | OMIM:300494 | MONDO:equivalentObsolete |
| MONDO:0010343 | OMIM:300497 | MONDO:equivalentObsolete |
| MONDO:0010346 | OMIM:300504 | MONDO:equivalentObsolete |
| MONDO:0010357 | OMIM:300551 | MONDO:equivalentObsolete |
| MONDO:0010368 | OMIM:300584 | MONDO:equivalentObsolete |
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| MONDO:0010720 | OMIM:307300 | MONDO:equivalentObsolete |
| MONDO:0010720 | OMIM:312100 | MONDO:equivalentObsolete |
| MONDO:0010804 | OMIM:600048 | MONDO:equivalentObsolete |
| MONDO:0010859 | OMIM:600309 | MONDO:equivalentObsolete |
| MONDO:0010911 | OMIM:600634 | MONDO:equivalentObsolete |
| MONDO:0010936 | OMIM:614696 | MONDO:equivalentObsolete |
| MONDO:0010957 | OMIM:600908 | MONDO:equivalentObsolete |
| MONDO:0010975 | OMIM:600996 | MONDO:equivalentObsolete |
| MONDO:0011111 | OMIM:601563 | MONDO:equivalentObsolete |
| MONDO:0011362 | OMIM:607569 | MONDO:equivalentObsolete |
| MONDO:0011401 | OMIM:611155 | MONDO:equivalentObsolete |
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| MONDO:0012017 | OMIM:608355 | MONDO:equivalentObsolete |
| MONDO:0012215 | OMIM:159000 | MONDO:equivalentObsolete |
| MONDO:0012247 | OMIM:609307 | MONDO:equivalentObsolete |
| MONDO:0012279 | OMIM:609456 | MONDO:equivalentObsolete |
| MONDO:0012461 | OMIM:610269 | MONDO:equivalentObsolete |
| MONDO:0012560 | OMIM:610799 | MONDO:equivalentObsolete |
| MONDO:0012853 | OMIM:233500 | MONDO:equivalentObsolete |
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1 change: 1 addition & 0 deletions docs/reports/mapped_deprecated_ordo.md
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| MONDO:0017995 | Orphanet:329252 | MONDO:equivalentObsolete |
| MONDO:0017996 | Orphanet:329255 | MONDO:equivalentObsolete |
| MONDO:0018003 | Orphanet:329341 | MONDO:equivalentObsolete |
| MONDO:0018046 | Orphanet:3323 | MONDO:equivalentObsolete |
| MONDO:0018070 | Orphanet:338 | MONDO:equivalentObsolete |
| MONDO:0018100 | Orphanet:34526 | MONDO:equivalentObsolete |
| MONDO:0018101 | Orphanet:34527 | MONDO:equivalentObsolete |
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8 changes: 4 additions & 4 deletions docs/reports/unmapped.md
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|:-----------------------------------|:------------|:---------------|:-----------------|:------------------------------------------|:--------------------------|:----------------------------|:--------------------------|
| [ICD10WHO](./unmapped_icd10who.md) | 12,542 | 0 | 0 | 12,542 | 18 | 12,524 | 99.9% |
| [ICD10CM](./unmapped_icd10cm.md) | 95,847 | 15,452 | 0 | 80,395 | 1,160 | 79,235 | 98.6% |
| [NCIT](./unmapped_ncit.md) | 174,300 | 148,488 | 5,055 | 20,757 | 6,793 | 13,964 | 67.3% |
| [OMIM](./unmapped_omim.md) | 28,154 | 18,928 | 1,230 | 7,996 | 7,622 | 374 | 4.7% |
| [ORDO](./unmapped_ordo.md) | 10,866 | 1,718 | 1,418 | 9,148 | 8,934 | 214 | 2.3% |
| [DOID](./unmapped_doid.md) | 13,689 | 2,626 | 2,473 | 11,062 | 9,727 | 1,335 | 12.1% |
| [NCIT](./unmapped_ncit.md) | 174,300 | 148,488 | 5,055 | 20,757 | 6,790 | 13,967 | 67.3% |
| [OMIM](./unmapped_omim.md) | 28,750 | 18,958 | 1,353 | 8,439 | 8,105 | 334 | 4.0% |
| [ORDO](./unmapped_ordo.md) | 10,866 | 1,718 | 1,418 | 9,148 | 8,935 | 213 | 2.3% |
| [DOID](./unmapped_doid.md) | 13,689 | 2,626 | 2,473 | 11,062 | 9,725 | 1,337 | 12.1% |

`Ontology`: Name of ontology
`Tot terms`: Total terms in ontology
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4 changes: 3 additions & 1 deletion docs/reports/unmapped_doid.md
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| DOID:0111721 | amelogenesis imperfecta type 3 |
| DOID:0060204 | amyotrophic lateral sclerosis type 13 |
| DOID:0111246 | amyotrophic lateral sclerosis-parkinsonism/dementia complex 1 |
| DOID:873 | anaerobic pneumonia |
| DOID:5889 | anaplastic ependymoma |
| DOID:7154 | anaplastic oligodendroglioma |
| DOID:0080854 | anaplastic pleomorphic xanthoastrocytoma |
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| DOID:0080720 | autosomal dominant congenital deafness with onychodystrophy |
| DOID:0080807 | autosomal dominant craniodiaphyseal dysplasia |
| DOID:0080801 | autosomal dominant craniometaphyseal dysplasia |
| DOID:0070136 | autosomal dominant cutis laxa 2 |
| DOID:0070020 | autosomal dominant dyskeratosis congenita 4 |
| DOID:0080682 | autosomal dominant familial visceral neuropathy |
| DOID:0111269 | autosomal dominant hyaline body myopathy |
Expand All @@ -365,6 +365,7 @@
| DOID:0111864 | autosomal recessive congenital bilateral absence of vas deferens |
| DOID:0111797 | autosomal recessive congenital nystagmus |
| DOID:0080802 | autosomal recessive craniometaphyseal dysplasia |
| DOID:0070141 | autosomal recessive cutis laxa type II classic type |
| DOID:0081177 | autosomal recessive intellectual developmental disorder 1 |
| DOID:0081185 | autosomal recessive intellectual developmental disorder 10/20 |
| DOID:0081186 | autosomal recessive intellectual developmental disorder 11 |
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| DOID:0081118 | benign familial infantile seizures 5 |
| DOID:0081119 | benign familial infantile seizures 6 |
| DOID:0081026 | benign peritoneal solitary fibrous tumor |
| DOID:5157 | benign pleural mesothelioma |
| DOID:0080602 | benign teratoma |
| DOID:60006 | benign vascular tumor |
| DOID:0080772 | beta-thalassemia intermedia |
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3 changes: 3 additions & 0 deletions docs/reports/unmapped_ncit.md
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| NCIT:C23084 | Lymphoproliferative Neoplasms of the Mouse Pharynx |
| NCIT:C23148 | Lymphoproliferative Neoplasms of the Mouse Salivary Glands |
| NCIT:C26960 | Lymphosarcoma Involving Spleen |
| NCIT:C6725 | Lynch 1 Syndrome |
| NCIT:C6726 | Lynch 2 Syndrome |
| NCIT:C188259 | MAFA Related Familial Insulinomatosis |
| NCIT:C21881 | MAIDS |
| NCIT:C148394 | MCD Diffuse Large B-Cell Lymphoma |
Expand Down Expand Up @@ -9842,6 +9844,7 @@
| NCIT:C8658 | Refractory Anaplastic Large Cell Lymphoma |
| NCIT:C169074 | Refractory Anaplastic Oligodendroglioma |
| NCIT:C160905 | Refractory Anaplastic Pleomorphic Xanthoastrocytoma |
| NCIT:C2872 | Refractory Anemia |
| NCIT:C8671 | Refractory Angioimmunoblastic T-Cell Lymphoma |
| NCIT:C179178 | Refractory Appendix Adenocarcinoma |
| NCIT:C179177 | Refractory Appendix Carcinoma |
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