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wiki:autolit:search:exploration [2023/01/05 16:52] kevinkallmes |
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 ==== | ||
- | {{:wiki:autolit: | + | {{ :undefined:screenshot-2024-09-05-at-17.20.30-2048x356.png? |
- | ==== 2. Enter PICO of Interest: ==== | + | ==== 2. Enter concepts |
- | When you create a nest, you will have the option | + | You may add in any concepts of interest, but it can often be helpful |
- | **Imagine you are asking | + | 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/ |
- | - First, enter the Population (patients with schizophrenia), | + | {{ : |
- | | + | |
- | | + | |
- | | + | |
- | {{: | + | 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) and naming each group if you wish (orange). You’ll notice the right-hand query preview has now “OR”ed the grouped concepts. |
- | <WRAP center round help 90%> What is a **Comparator? | + | {{ : |
+ | **Negation: | ||
- | ==== 3. Edit PICO Details ==== | + | {{ : |
- | When you have completed the tasks above, you will have unstructured terms of interest, but no grouping of terms and no information yet populated to the Abstracts, RoboPICO, Topic Modeling, and Keywords. | ||
- | To proceed, click on "PICO detail" | + | ==== 3. Refresh Exploration ==== |
- | {{: | + | Now you’ve added, grouped, and negated a few concepts of interest, minimise the concept box and select “Refresh Exploration.” This action searches PubMed and populates the following tabs from a subset of 250 studies: Abstracts, PICOs, Study Types, Location, Size, Topics, Acronyms and Keywords. |
- | ---- | + | {{ : |
+ | 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 ==== | + | {{ : |
- | - Drag and drop the Group box from the right-side panel to the respective PICO section.{{: | + | When you update |
- | - Group together sets of populations, interventions, | + | |
- | {{: | + | 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). |
- | <WRAP center round info 90%> Negation: Check the negate box to exclude the specific PICO elements from your search. For example, you can add the population " | + | ==== 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 |
- | - In the PICO Detail, select " | + | Skim through abstracts retrieved through your search |
- | - Review the query string to ensure that it is structured as intended. | + | |
- | - Run the exploratory | + | |
- | {{:wiki:autolit: | + | {{ :undefined:screenshot-2024-09-05-at-17.40.13-2048x974.png? |
- | When you update search exploration, | + | The purpose of reviewing Abstracts should |
+ | - Confirm that your search is returning relevant records, and | ||
+ | - Identify the key terms found in relevant records and adding them to your PICO terms. | ||
- | ===== How to Interpret Search Exploration Findings ===== | + | === 2. PICOs === |
- | 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 |
- | 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: |