Merge pull request #669 from floWetzels/LabProcess

LabProcess Type Draft
BioSchemas · Jan 29, 2024 · 310555a · 310555a
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diff --git a/LabProcess/README.md b/LabProcess/README.md
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+# LabProcess Specification
+
+## Type
+
+Thing > CreativeWork > [LabProcess](https://bioschemas.org/LabProcess/)
+
+## Profile 
+
+### Example Markup
+
+## Issue Tracker
+
diff --git a/LabProcess/examples/0.1-DRAFT/labprocess_v0.1.json b/LabProcess/examples/0.1-DRAFT/labprocess_v0.1.json
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+{
+    "@context": "http://schema.org/",
+    "@type": [
+        "LabProcess"
+    ],
+    "name": "Cell Cultivation",
+    "executesProtocol": {
+        "@type": [
+            "LabProtocol"
+        ],
+        "intendedUse": {
+            "@type": "DefinedTerm",
+            "name": "growth protocol",
+            "termCode": "http://purl.obolibrary.org/obo/EFO_0003789"
+        },
+        "labEquipment": {
+            "@type": [
+              "DefinedTerm"
+            ],
+            "alternateName": "Photon System Instruments, FMT 150/400-RB",
+            "name": "bioreactor",
+            "termCode": "http://purl.obolibrary.org/obo/OBI_0001046"
+        }
+    },
+    "parameterValue": [
+        {
+            "@type": "PropertyValue",
+            "name": "temperature",
+            "value": "20",
+            "unitCode": "http://purl.obolibrary.org/obo/UO_0000027",
+            "unitText": "degree Celsius",
+            "propertyID": "http://purl.obolibrary.org/obo/PATO_0000146"
+        },
+        {
+            "@type": "PropertyValue",
+            "name": "culture medium volume",
+            "value": "400",
+            "unitCode": "http://purl.obolibrary.org/obo/UO_0000098",
+            "unitText": "milliliter",
+            "propertyID": "DPBO:1000155"
+        },
+        {
+            "@type": "PropertyValue",
+            "name": "Mixture Component",
+            "value": "TAP medium",
+            "propertyID": "http://purl.obolibrary.org/obo/NCIT_C103243"
+        },
+        {
+            "@type": "PropertyValue",
+            "name": "light intensity",
+            "value": "400",
+            "unitCode": "http://purl.obolibrary.org/obo/UO_0000160",
+            "unitText": "microeinstein per square meter per second",
+            "propertyID": "http://purl.obolibrary.org/obo/ZECO_0000151"
+        }     
+    ],
+    "agent": {
+        "@type": "Person",
+        "givenName": "Benedikt",
+        "familyName": "Venn"
+    },
+    "endTime": "2012-04-23T18:25:43.511Z",
+    "object": [
+        {
+            "@type": [
+                "Sample"
+            ],
+            "name": "reactor_35_A",
+            "additionalProperties": [
+                {
+                    "@type": "PropertyValue",
+                    "name": "organism",
+                    "value": "Chlamydomonas reinhardtii",
+                    "propertyID": "http://purl.obolibrary.org/obo/OBI_0100026",
+                    "valueReference": "http://purl.obolibrary.org/obo/NCBITaxon_3055"
+                },
+                {
+                    "@type": "PropertyValue",
+                    "name": "biological replicate",
+                    "value": 1,
+                    "propertyID": "http://www.ebi.ac.uk/efo/EFO_0002091"
+                }
+            ]
+        },
+        {
+            "@type": [
+                "Sample"
+            ],
+            "name": "reactor_35_B",
+            "additionalProperties": [
+                {
+                    "@type": "PropertyValue",
+                    "name": "organism",
+                    "value": "Chlamydomonas reinhardtii",
+                    "propertyID": "http://purl.obolibrary.org/obo/OBI_0100026",
+                    "valueReference": "http://purl.obolibrary.org/obo/NCBITaxon_3055"
+                },
+                {
+                    "@type": "PropertyValue",
+                    "name": "biological replicate",
+                    "value": 2,
+                    "propertyID": "http://www.ebi.ac.uk/efo/EFO_0002091"
+                }
+            ]
+        },
+        {
+            "@type": [
+                "Sample"
+            ],
+            "name": "reactor_35_C",
+            "additionalProperties": [
+                {
+                    "@type": "PropertyValue",
+                    "name": "organism",
+                    "value": "Chlamydomonas reinhardtii",
+                    "propertyID": "http://purl.obolibrary.org/obo/OBI_0100026",
+                    "valueReference": "http://purl.obolibrary.org/obo/NCBITaxon_3055"
+                },
+                {
+                    "@type": "PropertyValue",
+                    "name": "biological replicate",
+                    "value": 3,
+                    "propertyID": "http://www.ebi.ac.uk/efo/EFO_0002091"
+                }
+            ]
+        }
+    ],
+    "result": [
+        {
+            "@type": [
+                "Sample"
+            ],
+            "name": "run_35_A",
+            "additionalProperties": []
+        },
+        {
+            "@type": [
+                "Sample"
+            ],
+            "name": "run_35_B",
+            "additionalProperties": []
+        },
+        {
+            "@type": [
+                "Sample"
+            ],
+            "name": "run_35_C",
+            "additionalProperties": []
+        }
+    ]
+}
diff --git a/LabProcess/jsonld/type/LabProcess_v0.1-DRAFT.jsonld b/LabProcess/jsonld/type/LabProcess_v0.1-DRAFT.jsonld
@@ -0,0 +1,51 @@
+{
+  "@context": {
+    "schema": "http://schema.org/",
+    "rdf": "http://www.w3.org/1999/02/22-rdf-syntax-ns#",
+    "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
+    "bioschemastypesdrafts": "https://discovery.biothings.io/view/bioschemastypesdrafts/",
+    "bioschemas": "https://discovery.biothings.io/view/bioschemas/"
+  },
+  "@graph": [
+    {
+      "@id": "bioschemastypesdrafts:LabProcess",
+      "@type": "rdfs:Class",
+      "rdfs:comment": "This is an initial draft of the new LabProcess type.\n\nA LabProcess represents the specific application of a LabProtocol to some input (biological material or data) to produce some output (biological material or data).\n\nThis draft was prepared by Florian Wetzels and Lukas Weil, its specification is still up for discussion.",
+      "rdfs:label": "LabProcess",
+      "rdfs:subClassOf": {
+        "@id": "schema:Action"
+      },
+      "schemaVersion": [
+        "https://schema.org/docs/releases.html#v23.0"
+      ]
+    },
+    {
+      "@id": "bioschemastypesdrafts:parameterValue",
+      "@type": "rdf:Property",
+      "rdfs:comment": "A parameter value of the experimental process, usually a key-value pair using ontology terms.",
+      "rdfs:label": "parameterValue",
+      "schema:domainIncludes": {
+        "@id": "bioschemastypesdrafts:LabProcess"
+      },
+      "schema:rangeIncludes": [
+        {
+          "@id": "schema:PropertyValue"
+        }
+      ]
+    },
+    {
+      "@id": "bioschemastypesdrafts:executesLabProtocol",
+      "@type": "rdf:Property",
+      "rdfs:comment": "The lab protocol describes the experimental workflow and its parameters, which is instantiated by this process.",
+      "rdfs:label": "executesLabProtocol",
+      "schema:domainIncludes": {
+        "@id": "bioschemastypesdrafts:LabProcess"
+      },
+      "schema:rangeIncludes": [
+        {
+          "@id": "bioschemastypesdrafts:LabProtocol"
+        }
+      ]
+    }
+  ]
+}