Last modified by maaike on 2022/07/05 20:42
From version 19.3
edited by maaike
on 2022/06/23 12:06
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To version 13.1
edited by maaike
on 2022/06/23 10:48
Change comment: There is no comment for this version

Summary

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24 24  * Learn how to build a simple query using the Knowledge Graph Query Builder
25 25  * Learn how to execute a query via python jupyter notebook
26 26  
27 +
27 27  === Knowledge Graph Search UI ===
28 28  
29 -The Knowledge Graph search user inferface is a user-friendly interface for accessing and extracting data and metadata. Use of the Knowledge Graph search is free and most datasets are open to the public. Human datasets with identifiable information can only be accessed with an EBRAINS account.
30 +The Knowledge Graph search user inferface can be acces via: https:~/~/search.kg.ebrains.eu.
30 30  
31 -Go to the Search UI: [[https:~~/~~/search.kg.ebrains.eu/>>https://search.kg.ebrains.eu/]]
32 +To find a dataset:
32 32  
33 -==== Refine search ====
34 +1) Select a category (i.e. Project, Dataset, Model, Software or Contributor
34 34  
35 -To find a dataset you can use the search filters:
36 +2) Select a modality/experimental approach (e.g. electrophysiology)
36 36  
37 -1. Select a category (i.e. Project, Dataset, Model, Software or Contributor
38 -1. Select a modality/experimental approach (e.g. electrophysiology)
39 -1. Select a species (e.g. mus musculus (mouse))
38 +3) Select a species (e.g. mus musculus (mouse))
40 40  
41 -[[image:SearchStep1-3.png||alt="Steps 1-3: Refine search" height="398" width="700"]]
40 +[[image:SearchStep1-3.png||alt="Steps 1 to 3" height="341" width="600"]]
42 42  
43 -You can refine you search even further by using the free text search. Based on your search criteria, you get a number of hits.
44 44  
45 -==== Select a dataset ====
43 +(% class="wikigeneratedid" %)
44 += =
46 46  
47 -When you select a dataset, you can read find a summary of the metadata on the dataset card (see example below).
46 +(% class="wikigeneratedid" %)
47 += =
48 48  
49 -[[image:SearchStep4.png||alt="Step 4: Dataset Card" height="500" width="700"]]
49 +(% class="wikigeneratedid" %)
50 += =
50 50  
51 -==== Access detailed metadata ====
52 +(% class="wikigeneratedid" %)
53 += =
52 52  
53 -In the side panel, you can find an overview of the metadata that is available for this dataset. For example:
55 +(% class="wikigeneratedid" %)
56 += =
54 54  
55 -1. The data descriptor is a pdf text file with detailed information about the dataset, including the methods, technical validation, usage notes and data organisation.
56 -1. Detailed subject metadata can be found in a separate tab (see below).
58 +(% class="wikigeneratedid" %)
59 += =
57 57  
58 -[[image:SearchStep5.png||alt="Step 5: Subject metadata" height="400" width="700"]]
61 +(% class="wikigeneratedid" %)
62 += =
59 59  
60 -In this dataset, a number of subjects were used with a C57BL/6J (wildtype) genotype. These were 4-9 months old (adult mice) with a weight between 38 - 47 gram. They were tested three times under aneasthesia, which is captured by the "studied states" of the subject. Additional details regarding the tests is stored under additional remarks (currently not visible in the image).
64 +(% class="wikigeneratedid" %)
65 += =
61 61  
62 -= Programmatic access (API) =
63 -
64 -The EBRAINS Knowledge Graph provides convenient tools and APIs for the implementation of queries into your scripts.
65 -
66 -=== Request permission ===
67 -
68 -To be able to access the Knowledge Graph (KG) programmatically, you require:
69 -
70 -1. An EBRAINS account. Register for an account here: [[https:~~/~~/ebrains.eu/register/>>https://ebrains.eu/register/]]
71 -1. Register and request credentials for your KG client by emailing support@ebrains.eu
72 -
73 -=== Query Builder ===
74 -
75 -The query builder allows you to make, save, and reuse complex queries without any knowledge of graph query languages.
76 -
77 -Go to the Query Builder: [[https:~~/~~/query.kg.ebrains.eu>>https://query.kg.ebrains.eu/#state=6a41dd5b-3cf9-4263-8a65-83d41f27677a&session_state=638c33f5-4551-4d70-8b1d-a5c900aa62d0&code=300f25d8-caac-4576-9a21-195ccc93fd31.638c33f5-4551-4d70-8b1d-a5c900aa62d0.4214dba9-b6d0-4331-9837-3e75a10cda14]]
78 -
79 79  = Who has access? =
80 80  
81 81  Describe the audience of this collab.
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