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wiki:autolit:search:exploration [2023/04/08 21:30] jthurnham [1. Abstracts] |
wiki:autolit:search:exploration [2024/09/20 16:10] (current) jthurnham |
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====== Search Exploration ====== | ====== Search Exploration ====== | ||
- | The Search Exploration page allows you to generate search | + | The Search Exploration page allows you to input concepts, explore the literature and generate |
===== How to Begin Search Exploring ===== | ===== How to Begin Search Exploring ===== | ||
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==== 1. Navigate to Search Exploration ==== | ==== 1. Navigate to Search Exploration ==== | ||
- | {{ :undefined:lise2.png?nolink |}} | + | {{ :undefined:screenshot-2024-09-05-at-17.20.30-2048x356.png?nolink |}} |
- | ==== 2. Enter PICO of Interest: ==== | + | |
- | When you create a nest, you will have the option to add details about the Population, Interventions (and comparators), | + | ==== 2. Enter concepts of Interest: ==== |
- | **Imagine you are asking | + | You may add in any concepts of interest, but it can often be helpful to add and group specific PICOs. Add individual terms into the concept box (red) and then hit Enter on your keyboard. This will add the terms into the central concept box. |
- | - First, enter the Population | + | As terms are added they are automatically building a search query whose Preview is shown on the right hand side (blue). Per a typical Boolean Query, you’ll notice they are “AND”ed together. To expand/ |
- | - Enter each concept, then hit the Enter button, this will move them under Concepts. | + | |
- | - Continue adding terms until you have enough terms to identify your specific topic area (**Recommended**: | + | |
- | {{ :undefined:se.png?nolink |}} | + | {{ :undefined:screenshot-2024-09-05-at-17.25.16-2048x1004.png?nolink |}} |
- | <WRAP center round help 90%> What is a **Comparator? | + | You can group like concepts to “OR” them together instead by dragging in the Group box icon (red), then dragging each relevant concept into a group (blue) |
- | {{ :undefined:se4.png?nolink |}} | + | {{ :undefined:screenshot-2024-09-05-at-17.27.15-2048x993.png?nolink |}} |
- | <WRAP center round info 90%> | + | **Negation:** Check the negate box to exclude |
+ | {{ : | ||
- | ==== 3. Edit Concepts ==== | ||
- | When you have completed the tasks above, you will have unstructured concepts of interest, but no grouping of terms and no information yet populated to the Abstracts, RoboPICO, Topic Modeling, and Keywords. | + | ==== 3. Refresh Exploration ==== |
- | To proceed, click on the down arrow under Concepts to view, add, and group together PICO elements. Alternatively, | + | Now you’ve added, grouped, and negated a few concepts of interest, minimise the concept box and select “Refresh Exploration.” This action searches PubMed |
- | {{ :undefined:se2.png?nolink |}} | + | {{ :undefined:screenshot-2024-09-05-at-17.37.43-2048x1023.png?nolink |}} |
- | ---- | + | A modal will appear while Search Exploration refreshes. This may take a minute, since this will run a pre-search of PubMed. |
+ | {{ : | ||
- | ==== 4. Group together PICO elements ==== | + | When you update search exploration, |
- | - Drag and drop the Group box into the concepts box. | + | Feel free to click out of this modal and it will continue to run in the background. You can check in on its progress via the background jobs icon (three horizontal progress lines in the top right). |
- | - Group together sets of populations, | + | |
- | - You can also negate whole groups by checking | + | |
- | {{ : | + | ==== How to Interpret Search Exploration Findings ==== |
+ | There are several ways to explore the references pulled by your exploratory search. The goal of this process should be to expand or refine your search terms so that they return as many records of interest while limiting irrelevant results. | ||
- | ==== 5. Run or Update Search Exploration | + | Iterative Refinement: As you use the tools outlined below to add, remove, |
- | To populate | + | === 1. Abstracts |
- | * Select the " | + | Skim through abstracts retrieved through your search exploration terms. |
- | {{ :undefined:se5.png?nolink |}} | + | {{ :undefined:screenshot-2024-09-05-at-17.40.13-2048x974.png?nolink |}} |
- | * A modal will appear while Search Exploration refreshes. This may take a minute, since this will run a pre-search | + | The purpose |
- | {{ : | + | - Confirm that your search is returning relevant records, and |
+ | - Identify the key terms found in relevant records and adding them to your PICO terms. | ||
- | When you update search exploration, | + | === 2. PICOs === |
- | ===== How to Interpret Search Exploration Findings ===== | + | |
- | There are several ways to explore the references pulled | + | Powered |
- | Iterative Refinement: As you use the tools outlined below to add, remove, or restructure your terms, you should periodically re-run " | + | {{ :undefined: |
- | ==== 1. Abstracts ==== | + | The purpose of RoboPICO should be to: |
- | Skim through | + | - Identify the most common topics of underlying |
+ | - Identify | ||
- | {{ : | + | Clicking a row in the chart also initiates a strict MeSH lookup on the PICO element; not all extracted PICOs will correspond to MeSHs, but expect approximately half of lookups to succeed. In the event of a failed lookup, MeSH and Google search linkouts are offered. |
- | The purpose | + | What are MeSH? Medical Subject Headings (MeSH) are terms defined by the National Library |
- | - Confirm that your search is returning relevant records, and | + | ==== 3. Study Type ==== |
- | - Identify the key terms found in relevant records and adding them to your PICO terms. | + | |
+ | Powered by [[https:// | ||
- | ==== 2. RoboPICO ==== | + | {{ : |
- | Browse commonly-mentioned Populations, | + | ==== 4. Location ==== |
- | {{:wiki: | + | Powered by [[https:// |
- | The purpose of RoboPICO should be to: | + | {{ :undefined: |
- | - Identify the most common topics of underlying abstracts, and | + | ==== 5. Study Size ==== |
- | - Identify terms that you should add to your PICO (which you can populate to "Add a PICO Element" | + | |
- | ---- | + | Powered by [[https:// |
- | + | ||
- | Clicking a row in the chart also initiates a strict MeSH lookup on the PICO element; not all extracted PICOs will correspond to MeSHs, but expect approximately half of lookups to succeed. In the event of a failed lookup, MeSH and Google search linkouts are offered. | + | |
- | + | ||
- | {{: | + | |
- | + | ||
- | <WRAP center round help 90%> What are MeSH? Medical Subject Headings (MeSH) are terms defined by the National Library | + | |
+ | {{ : | ||
- | ==== 3. Topics ==== | + | ==== 6. Topics ==== |
Explore topics that appear most frequently among the references. References may belong to one or more topics, or none. Clicking a topic shows references belonging to the topic. | Explore topics that appear most frequently among the references. References may belong to one or more topics, or none. Clicking a topic shows references belonging to the topic. | ||
- | {{:wiki:autolit: | + | {{ :undefined:screenshot-2024-09-05-at-17.50.10-2048x1019.png? |
These topics are derived from a [[https:// | These topics are derived from a [[https:// | ||
- | ---- | + | ==== 7. Acronyms ==== |
+ | Powered by [[https:// | ||
- | ==== 4. Keywords and N-Grams ==== | + | {{ : |
+ | |||
+ | ==== 8. Keywords and N-Grams ==== | ||
Explore the frequency of word combinations (n-grams) from abstracts or indexed descriptors (MeSH and/or journal keywords). While n-grams are presented in order of occurence in abstract text, descriptors are inherently unordered. Clicking a row shows unique references containing the combination. | Explore the frequency of word combinations (n-grams) from abstracts or indexed descriptors (MeSH and/or journal keywords). While n-grams are presented in order of occurence in abstract text, descriptors are inherently unordered. Clicking a row shows unique references containing the combination. | ||
- | {{:wiki:autolit: | + | {{ :undefined:seabs4.png? |
- | + | ||
- | {{: | + | |
+ | Note: Study Type/ | ||
===== Next Steps ===== | ===== Next Steps ===== | ||
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==== When is Search Exploration finished? ==== | ==== When is Search Exploration finished? ==== | ||
- | You should continue iteratively refining your query until your Abstract, RoboPICO, Topics, and/or Keywords | + | You should continue iteratively refining your query until the Exploration tabs contain mostly relevant content and minimal extraneous records or concepts. |
- | It is useful to **check the total number of records** | + | It is useful to check the total number of records returned from your query. To do so, view the number of records in the top right of the Preview screen |
- | {{:wiki: | + | There is no ‘right’ number of records, but a good rule of thumb is to return: |
- | There is no ' | + | * A maximum of 200-300 records, with |
- | + | | |
- | - A maximum of **200-300 records**, with | + | |
- | | + | |
The reasoning behind this recommendation is that you want to capture relevant records while minimizing extra work during Screening (remember, your team will need to manually Screen all results from your Search!). You can always add new/ | The reasoning behind this recommendation is that you want to capture relevant records while minimizing extra work during Screening (remember, your team will need to manually Screen all results from your Search!). You can always add new/ | ||
- | ==== What comes after Search | + | {{ : |
+ | |||
+ | ==== Finalize your Search | ||
- | When you are finished with Search Exploration, | + | To finalize your query and make edits select “Finalize” |
+ | {{ : | ||
+ | Now you have added a search query, the next stage is [[wiki: |