LIS integration
Celly lets labs manage the data and store all the reports in their own LIS
LIS configuration is available on the Standard and Enterprise plans
Go to the LIS page. If LIS Integration is activated, your LIS can make requests to the Celly server and get analysis results.
Use basic authentication for all requests with Organization ID as login and Secret key as password. Organization ID and Secret key can be found at https://app.celly.ai/lis/
Celly provides APIs that return analysis results to LIS:
- 1.https://app.celly.ai/api/lis/v1/analysis/kinds - returns a list of id and corresponding analysis types
curl -X GET "https://app.celly.ai/api/lis/v1/analysis/kinds" -H "accept: application/json" -H "authorization: Basic $credentials$"
[{"id": 0,"name": "Blood: CBC"},{"id": 1,"name": "Bone marrow: WBC-differential"},{"id": 2,"name": "Malaria thin: parasites detection"},{"id": 3,"name": "Malaria thin: parasites counting"},{"id": 4,"name": "Slide Scan"},{"id": 5,"name": "Malaria thick: parasites counting"},{"id": 6,"name": "Blood: PLT counting (Fonio)"},{"id": 7,"name": "Canine Blood: CBC"},{"id": 8,"name": "Feline Blood: CBC"},{"id": 9,"name": "Canine Blood: CBC, 40x"},{"id": 10,"name": "Blood: CBC, 40x"},{"id": 11,"name": "Feline Blood: CBC, 40x"},{"id": 14,"name": "Pap (liquid-based), 40x"},{"id": 12,"name": "Canine Reticulocytes, 100x"},{"id": 13,"name": "Feline Reticulocytes, 100x"}] - 2.https://app.celly.ai/api/lis/v1/analysis/statuses - returns a list of id and corresponding analysis statuses
curl -X GET "https://app.celly.ai/api/lis/v1/analysis/statuses" -H "accept: application/json" -H "authorization: Basic $credentials$"
[{"id": 6,"name": "Pending"},{"id": 0,"name": "Active"},{"id": 1,"name": "Post Processing"},{"id": 2,"name": "In Review"},{"id": 3,"name": "Approved"},{"id": 4,"name": "Rejected"},{"id": 5,"name": "Error"}] - 3.https://app.celly.ai/api/lis/v1/analysis - provides a list of all tests (in In Review / Approved / Rejected status) of your organization
curl -X GET "https://app.celly.ai/api/lis/v1/analysis?page=1&page_size=3" -H "accept: application/json" -H "authorization: Basic $credentials$"- To list the tests that have not yet been submitted to LIS use
sent_to_lis=False - To filter by status and kind use
kind=idandstatus=idrespectively - Use
page_sizeto customize the page size, default is 20 - Use
pageto navigate between pages count- total number of filtered tests,previous/next- link to get previous/next page
{"count": 107,"next": "http://app.celly.ai/api/lis/v1/analysis?page=2&page_size=3","previous": null,"results": [{"test_id": 16914,"description": "94111395","kind": {"id": 0,"name": "Blood: CBC"},"status": {"id": 2,"name": "In Review"},"sent_to_lis": false,"started_at": "2021-12-27T13:03:38.718838+03:00","duration_sec": 632},{"test_id": 16913,"description": "9919268438","kind": {"id": 0,"name": "Blood: CBC"},"status": {"id": 2,"name": "In Review"},"sent_to_lis": false,"started_at": "2021-12-27T12:58:24.264011+03:00","duration_sec": 190},{"test_id": 16912,"description": "9919266523","kind": {"id": 0,"name": "Blood: CBC"},"status": {"id": 2,"name": "In Review"},"sent_to_lis": false,"started_at": "2021-12-27T12:38:38.224161+03:00","duration_sec": 200}]} - 4.
- GET: returns results (format is described below)
- PATCH: returns results + marks the test as submitted to LIS (
sent_to_lis=True)
Analysis result format:
"test_id" – unique test id in the Celly.AI database
"sent_to_lis" - is test marked as submitted to LIS? (bool)
"created_at" – created date (string)
"finished_at" – finished date(string)
"description" – test description. Slide id from LIS will be here (string)
"conclusion" – conclusion text (string)
"kind_id" – test type id
"status_id" - test status id
"user" – user that performed the test (string)
"flags" – report flags (json)
"snapshots" - snapshot urls (array of strings)
"cell_counts" – cells number and images (json)
"tiles" - array of slide scan tiles (json)
Result example (CBC test)
{
"test_id":16914,
"lis_id":null,
"sent_to_lis":false,
"created_at":"2021-12-27 10:03:38.448056+00:00",
"finished_at":"2021-12-27 10:14:10.965686+00:00",
"description":"94111395",
"conclusion":null,
"kind_id":0,
"status_id":2,
"user":"Dialab",
"snapshots":[
"https://cdn.celly.ai/website/media/app/...",
...
],
"marked_cells":[
{
"name": "Monocyte",
"comment": "check the cell",
"url": "https://cdn.celly.ai/website/media/app/..."
},
...
],
"tiles":[
"https://cdn.celly.ai/website/panorama/deepzoom/0/0_0.jpg...",
"https://cdn.celly.ai/website/panorama/deepzoom/1/0_1.jpg...",
...
],
"cell_counts":{
"backend":[
{
"name":"Segmented Neutrophil",
"count":63,
"ratio":70,
"images":[
"https://cdn.celly.ai/website/media/app/...",
...
]
},
...
{
"name":"Total",
"count":90,
"ratio":100
},
{
"name":"Unclassified",
"count":8
}
],
"rbc_size":[
{
"name":"Normocytosis",
"count":294,
"ratio":98,
"images":[
"https://cdn.celly.ai/website/media/app/...",
...
]
},
...
{
"name":"Total",
"count":300,
"ratio":100
}
],
"rbc_color":[
{
"name":"Normochromia",
"count":300,
"ratio":100,
"images":[
"https://cdn.celly.ai/website/media/app/...",
...
]
},
...
{
"name":"Total",
"count":300,
"ratio":100
}
],
"rbc_shape":[
{
"name":"Normal",
"count":288,
"ratio":100,
"images":[
"https://cdn.celly.ai/website/media/app/...",
...
]
},
...
{
"name":"Total",
"count":288,
"ratio":100
},
{
"name":"Unclassified",
"count":12
}
],
"rbc_inc":[
{
"name":"Parasites",
"count":215,
"ratio":71.7,
"images":[
"https://cdn.celly.ai/website/media/app/...",
...
]
},
...
{
"name":"Total",
"count":300,
"ratio":100
}
]
},
"flags":{
"wbc":{
"Megaloblasts":0,
"Neutrophil hypersegmentation":0,
"Toxic granulation of neutrophils":0,
"Erythro, normoblasts":0
},
"plt":{
"Giant PLT":0,
"Clumps":0
},
"rbc":{
"Anisocytosis":0,
"Microcytosis":0,
"Macrocytosis":0,
"Anisochromia":0,
"Hypochromia":0,
"Hyperchromia":0,
"Poikilocytosis":0,
"Kodocytes":0,
"Schizocytes":0,
"Spherocytes":0,
"Ovalocytes":0,
"Teardrop":0,
"Stomatocytes":0,
"Acanthocytes":0,
"Echinocytes":0,
"Drepanocytes":0,
"Parasites":0,
"Cabot rings":0,
"Howell-Jolly bodies":0,
"Pappenheimer bodies":0,
"Basophilic stippling":0
}
}
}