@morscherlab/mint-sdk 1.0.0-beta.2 → 1.0.0-beta.3

package/src/__tests__/fixtures/templates/dose-response.json

@@ -0,0 +1,81 @@
+{
+  "template_id": "dose-response",
+  "template_version": "1.0",
+  "kind": "experiment-design",
+  "data": {
+    "compounds": [
+      {
+        "id": "drug-a",
+        "name": "Drug A",
+        "concentrations": [10, 1, 0.1],
+        "metadata": {
+          "color": "#10B981"
+        }
+      }
+    ],
+    "unit": "uM",
+    "replicates": 2,
+    "controls": [
+      {
+        "id": "dmso",
+        "name": "DMSO",
+        "role": "vehicle",
+        "vehicle": "DMSO",
+        "metadata": {}
+      }
+    ],
+    "layout": {
+      "plates": [
+        {
+          "id": "plate-1",
+          "name": "Dose response plate",
+          "format": 96,
+          "wells": {
+            "A1": {
+              "id": "A1",
+              "row": 0,
+              "col": 0,
+              "state": "filled",
+              "sampleType": "dmso",
+              "metadata": {
+                "role": "vehicle"
+              }
+            },
+            "A2": {
+              "id": "A2",
+              "row": 0,
+              "col": 1,
+              "state": "filled",
+              "sampleType": "drug-a",
+              "value": 10,
+              "metadata": {
+                "compound": "Drug A",
+                "concentration": 10
+              }
+            }
+          }
+        }
+      ],
+      "samples": [
+        {
+          "id": "dmso",
+          "name": "DMSO",
+          "color": "#3B82F6"
+        },
+        {
+          "id": "drug-a",
+          "name": "Drug A",
+          "color": "#10B981"
+        }
+      ],
+      "activePlateId": "plate-1",
+      "selectedWells": []
+    },
+    "metadata": {
+      "assay": "cell viability"
+    }
+  },
+  "metadata": {
+    "source": "fixture"
+  }
+}

package/src/__tests__/fixtures/templates/plate-map.json

@@ -0,0 +1,54 @@
+{
+  "template_id": "plate-map",
+  "template_version": "1.0",
+  "kind": "experiment-design",
+  "data": {
+    "plates": [
+      {
+        "id": "plate-1",
+        "name": "Drug screen plate",
+        "format": 96,
+        "wells": {
+          "A1": {
+            "id": "A1",
+            "row": 0,
+            "col": 0,
+            "state": "filled",
+            "sampleType": "dmso",
+            "metadata": {
+              "role": "vehicle"
+            }
+          },
+          "A2": {
+            "id": "A2",
+            "row": 0,
+            "col": 1,
+            "state": "filled",
+            "sampleType": "drug-a",
+            "value": 10,
+            "metadata": {
+              "compound": "Drug A"
+            }
+          }
+        }
+      }
+    ],
+    "samples": [
+      {
+        "id": "dmso",
+        "name": "DMSO",
+        "color": "#3B82F6"
+      },
+      {
+        "id": "drug-a",
+        "name": "Drug A",
+        "color": "#10B981"
+      }
+    ],
+    "activePlateId": "plate-1",
+    "selectedWells": []
+  },
+  "metadata": {
+    "source": "fixture"
+  }
+}

package/src/__tests__/fixtures/templates/qpcr-plate.json

@@ -0,0 +1,96 @@
+{
+  "template_id": "qpcr-plate",
+  "template_version": "1.0",
+  "kind": "experiment-design",
+  "data": {
+    "plateId": "qpcr-plate-1",
+    "format": 96,
+    "samples": [
+      {
+        "sampleId": "control",
+        "name": "Control",
+        "group": "Control",
+        "metadata": {
+          "condition": "baseline"
+        }
+      },
+      {
+        "sampleId": "treatment",
+        "name": "Treatment",
+        "group": "Treatment",
+        "metadata": {
+          "condition": "treated"
+        }
+      }
+    ],
+    "targets": [
+      {
+        "id": "actb",
+        "name": "ACTB",
+        "assayId": "Hs01060665_g1",
+        "reporter": "FAM",
+        "metadata": {}
+      },
+      {
+        "id": "gapdh",
+        "name": "GAPDH",
+        "assayId": "Hs02786624_g1",
+        "reporter": "FAM",
+        "metadata": {}
+      }
+    ],
+    "reactions": [
+      {
+        "id": "control-actb-r1",
+        "wellId": "A1",
+        "sampleId": "control",
+        "targetId": "actb",
+        "replicate": 1,
+        "controlKind": "sample",
+        "cq": 21.4,
+        "flags": [],
+        "metadata": {}
+      },
+      {
+        "id": "control-gapdh-r1",
+        "wellId": "A2",
+        "sampleId": "control",
+        "targetId": "gapdh",
+        "replicate": 1,
+        "controlKind": "sample",
+        "cq": 19.8,
+        "flags": [],
+        "metadata": {}
+      },
+      {
+        "id": "treatment-actb-r1",
+        "wellId": "A3",
+        "sampleId": "treatment",
+        "targetId": "actb",
+        "replicate": 1,
+        "controlKind": "sample",
+        "cq": 24.1,
+        "flags": ["review"],
+        "metadata": {}
+      },
+      {
+        "id": "ntc-actb",
+        "wellId": "A4",
+        "targetId": "actb",
+        "replicate": 1,
+        "controlKind": "no-template",
+        "cq": null,
+        "flags": [],
+        "metadata": {}
+      }
+    ],
+    "instrument": "QuantStudio",
+    "chemistry": "taqman",
+    "metadata": {
+      "assay": "gene expression"
+    }
+  },
+  "metadata": {
+    "source": "fixture"
+  }
+}

package/src/__tests__/fixtures/templates/sample-sheet.json

@@ -0,0 +1,71 @@
+{
+  "template_id": "sample-sheet",
+  "template_version": "1.0",
+  "kind": "experiment-design",
+  "data": {
+    "samples": [
+      {
+        "sampleId": "S001",
+        "name": "Control 1",
+        "group": "Control",
+        "batch": "Batch 1",
+        "replicate": 1,
+        "plateId": "plate-1",
+        "wellId": "A1",
+        "metadata": {
+          "cell_line": "HCT116"
+        }
+      },
+      {
+        "sampleId": "S002",
+        "name": "Drug A 1",
+        "group": "Drug A",
+        "batch": "Batch 1",
+        "replicate": 1,
+        "plateId": "plate-1",
+        "wellId": "A2",
+        "metadata": {
+          "cell_line": "HCT116"
+        }
+      }
+    ],
+    "columns": [
+      {
+        "id": "sample_id",
+        "label": "Sample ID",
+        "type": "string",
+        "required": true,
+        "groupable": false
+      },
+      {
+        "id": "group",
+        "label": "Group",
+        "type": "category",
+        "required": false,
+        "groupable": true
+      },
+      {
+        "id": "cell_line",
+        "label": "Cell Line",
+        "type": "string",
+        "required": false,
+        "groupable": true
+      }
+    ],
+    "groups": [
+      {
+        "name": "Control",
+        "color": "#3B82F6",
+        "samples": ["S001"]
+      },
+      {
+        "name": "Drug A",
+        "color": "#10B981",
+        "samples": ["S002"]
+      }
+    ]
+  },
+  "metadata": {
+    "source": "fixture"
+  }
+}