documentation:software:atlas:vocabulary
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documentation:software:atlas:vocabulary [2016/09/07 16:24] jhardin [Import] |
documentation:software:atlas:vocabulary [2019/05/30 20:47] (current) anthonysena |
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| ~~NOTOC~~ | ~~NOTOC~~ | ||
| - | ====== Vocabulary ====== | + | ===== IMPORTANT NOTE ===== |
| + | |||
| + | All ATLAS documentation has moved to [[https://github.com/OHDSI/ATLAS/wiki|GitHub]]. Please disregard the content below as it is legacy and kept for posterity. | ||
| + | |||
| + | ====== Vocabulary (LEGACY) ====== | ||
| Atlas provides the ability to search and explore the [[http://www.ohdsi.org/web/wiki/doku.php?id=documentation:vocabulary|OMOP standardized vocabulary]]. This functionality was originally built as part of the [[http://www.ohdsi.org/web/wiki/doku.php?id=documentation:software:hermes|Hermes working group]] and now Hermes has been fully incorporated into Atlas. | Atlas provides the ability to search and explore the [[http://www.ohdsi.org/web/wiki/doku.php?id=documentation:vocabulary|OMOP standardized vocabulary]]. This functionality was originally built as part of the [[http://www.ohdsi.org/web/wiki/doku.php?id=documentation:software:hermes|Hermes working group]] and now Hermes has been fully incorporated into Atlas. | ||
| - | Select "Vocabulary" in the Atlas left hand menu to bring up the search screen. You will see 4 tabs: search, advanced, results and import. Each section will be described in more detail. | + | Select "Vocabulary" in the Atlas left hand menu to bring up the search screen. You will see 2 tabs: search and import. Each section will be described in more detail. |
| + | {{ documentation:software:atlas:atlas_vocab_search.png |}} | ||
| ===== Search ===== | ===== Search ===== | ||
| ---- | ---- | ||
| Type in a search term and Atlas will search the entire standardized vocabulary for concepts that match that term. It will do a wildcard search so if you search for a term like "dementia" it will look for concepts that contain the term dementia. Once the search is complete, the results will show in the results tab. | Type in a search term and Atlas will search the entire standardized vocabulary for concepts that match that term. It will do a wildcard search so if you search for a term like "dementia" it will look for concepts that contain the term dementia. Once the search is complete, the results will show in the results tab. | ||
| - | ===== Advanced ===== | + | {{ documentation:software:atlas:atlas_vocab_dementia.png |}} |
| + | ===== Advanced Options ===== | ||
| ---- | ---- | ||
| - | This will allow you to perform a search query and specifically filter the results down to a specific set of vocabularies and domains. | + | This option is available below the 'search' button and will allow you to perform a search query and specifically filter the results down to a specific set of vocabularies and domains. |
| ===== Results ===== | ===== Results ===== | ||
| Line 22: | Line 28: | ||
| - Standard Concept: Allows for filtering down to [[http://www.ohdsi.org/web/wiki/doku.php?id=documentation:cdm:concept|standard concepts]]. | - Standard Concept: Allows for filtering down to [[http://www.ohdsi.org/web/wiki/doku.php?id=documentation:cdm:concept|standard concepts]]. | ||
| - Invalid Reason: This will enable for filtering out invalid concepts. | - Invalid Reason: This will enable for filtering out invalid concepts. | ||
| - | - Has Records: If you have configured a [[https://github.com/OHDSI/WebAPI/wiki/Source-Configuration|source daimon]] for your CDM, this filter will enable you to determine which concepts contain data in your CDM. | + | - Has Records: If you have configured a [[http://www.ohdsi.org/web/wiki/doku.php?id=documentation:software:webapi:webapi_installation_guide|source daimon]] for your CDM, this filter will enable you to determine which concepts contain data in your CDM. |
| - Has Descendant Records: Similar to "Has Records", it enables you to filter on concepts where descendant concepts contain data in your CDM. | - Has Descendant Records: Similar to "Has Records", it enables you to filter on concepts where descendant concepts contain data in your CDM. | ||
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| * Shopping Cart: Clicking on the shopping cart will allow you to select the concept for use in new [[http://www.ohdsi.org/web/wiki/doku.php?id=documentation:software:atlas:concept_sets|Creating concept sets]]. If you do not have a concept set open, this will automatically start a new concept set for you. | * Shopping Cart: Clicking on the shopping cart will allow you to select the concept for use in new [[http://www.ohdsi.org/web/wiki/doku.php?id=documentation:software:atlas:concept_sets|Creating concept sets]]. If you do not have a concept set open, this will automatically start a new concept set for you. | ||
| + | |||
| + | {{documentation:software:atlas:atlas_vocab_dementia_boxes.png|}} | ||
| ===== Import ===== | ===== Import ===== | ||
| ---- | ---- | ||
documentation/software/atlas/vocabulary.1473265463.txt.gz · Last modified: 2016/09/07 16:24 by jhardin
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