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wiki:autolit:extraction:export [2022/11/19 18:04] nicole_hardy_alumni.brown.edu [Exporting Risk of Bias] |
wiki:autolit:extraction:export [2023/12/12 13:25] (current) kevinkallmes [4. Add Columns] |
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- | ====== Exporting Tables ====== | + | ====== Exporting |
- | If you'd like to export your collected data into an Excel spreadsheet (CSV file), you can do so by either | + | If you'd like to export |
+ | |||
+ | <WRAP center round important 60%> | ||
+ | NOTE: Most Export functions have **moved to Inspector**. | ||
+ | |||
+ | Specifically, | ||
+ | </ | ||
+ | |||
+ | **Use this Export page for:** | ||
+ | * Custom Table Export and | ||
+ | * CER Builder. | ||
+ | |||
+ | **Use [[wiki: | ||
+ | * Study metadata (CSV or RIS Files) | ||
+ | * Screening decisions | ||
+ | * Tags & Tag Contents | ||
+ | * Extracted | ||
+ | * Critical Appraisal | ||
+ | * All Full Text PDFs | ||
- | Risk of Bias is exported separately from Tagging and Extraction. | ||
===== Custom Table Export ===== | ===== Custom Table Export ===== | ||
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Under Synthesis, click " | Under Synthesis, click " | ||
- | {{:wiki:autolit: | + | {{ :undefined:customcer.png? |
It should already be opened to Custom Tables; if you navigate away, click the " | It should already be opened to Custom Tables; if you navigate away, click the " | ||
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Click on the drop-down menu under "Table of" in order to choose whether you would like a table showing elements from the study as a whole, the various study arms in each study (placebo, intervention groups, etc.), or across all interventions. | Click on the drop-down menu under "Table of" in order to choose whether you would like a table showing elements from the study as a whole, the various study arms in each study (placebo, intervention groups, etc.), or across all interventions. | ||
- | {{:wiki:autolit: | + | {{ :undefined:studyarm.png? |
**Note** that if you want to be able to export/ | **Note** that if you want to be able to export/ | ||
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* **Bibliographic Data: | * **Bibliographic Data: | ||
+ | * Related Report Families can be identified as one of the pieces of Bibliographic data, with either the custom name or Author, Year of the Primary report. | ||
* To add all citation information in one cell, select " | * To add all citation information in one cell, select " | ||
* **Tag: | * **Tag: | ||
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{{ https:// | {{ https:// | ||
+ | === Including Tag Tables === | ||
- | ===== CER-specific Exports ===== | + | If you have configured and extracted data in tag tables, you can add individual tags to your custom table or add all table contents. To do so, under the columns dropdown select "Exact Tag" and you will see both options. Tags with an associated table will have a table icon next to them allowing you to pick and choose: |
- | Nested Knowledge offers export of certain data required by the [[https:// | + | {{ |
- | ==== Accessing | + | Or select "All Table Contents" |
- | To access the CER Export page, select Export from the AutoLit menu, and then in the resulting page, toggle to "CER Builder." | + | {{ : |
- | {{:wiki: | + | When multiple tables are added, NK attempts to join columns that share similar names to reduce duplicate columns. In the below example, both the Age and Sex tables had a column for " |
+ | {{ : | ||
- | ==== Exporting Documents | + | If this is incorrect, you can manually unjoin them by clicking the icon between tag tables listed (circled in red below) |
- | In the CER Builder, you have the options of exporting your Literature Search or your Screening activities. | + | {{ : |
- | === 1. Literature Search Export === | ||
- | To export a record of the Search Engines you used, alongside specific queries used, the number of total records returned, duplicates found and the number included and excluded from each search (as well as all studies that were [[: | + | ==== 5. Reorder Columns ==== |
- | Then, choose whether | + | If you wish to change the order of columns presented, simply drag and drop the column pills: |
- | {{: | + | {{ : |
- | === 2. Screening Export === | + | The column order will change accordingly. |
- | To export a record of all studies Screened in your nest, with full citation information and links to full texts, as well as the Screening status and (if excluded) the Exclusion Reason, select " | + | {{ : |
- | {{: | + | ==== Advanced Settings ==== |
- | Then, choose whether to export as a .docx or a .csv, and select " | + | Once you start customizing your table, you can also toggle with the advanced setting. |
- | {{:wiki:autolit: | + | {{ :undefined:screenshot_2023-11-21_at_12.46.38.png? |
+ | By default, when you add multiple tag columns to your table that are organized under separate root tags in the hierarchy, they will be exported into separate sheets within your workbook. This can be helpful to organize large datasets. This can be turned off by unchecking the box, and all columns will be encompassed in a single sheet. | ||
- | ===== Export All Data ===== | + | {{ : |
- | Use Export All Data if you want to obtain a Study Arm-level spreadsheet containing the bibliographic data, Interventions, | + | === Multiple Tag Columns === |
- | ==== 1. Navigate | + | See below for an example of tags organized under separate root tags. Specifically, |
- | On the Nest menu, click " | + | {{ : |
- | ---- | + | If you were to add both these tags as columns in your custom table... |
- | ==== 2. Toggle " | + | {{ : |
- | At the top of the page, toggle to " | + | ...the export will separate their data into separate sheets within your workbook to mimic the structure |
- | {{:wiki: | + | Sheet 1: |
- | === Choose Included-Only? === | + | {{ : |
- | For this option, the only configuration choice you have is whether to restrict to Included Records Only; you can simply export all data at the Study Arm level. | + | Sheet 2: |
- | If you export Included Records Only (default), no Excluded or Unscreened record will be exported **even if data were collected for that specific study.** | + | {{ : |
- | ---- | + | However, unchecking advanced settings ensures all data is encompassed within one sheet in your workbook: |
+ | {{ : | ||
- | ==== 3. Click " | + | **When your table is customized with the settings of your choice, click Download.** |
+ | ===== CER-specific Exports ===== | ||
- | Click on the " | + | Nested Knowledge offers export of certain data required by the [[https:// |
- | Keep in mind that all data elements are broken out by their constituent parts (e.g. Mean, SD, N) into separate columns and are separated by timepoint. Rows in the spreadsheet will correspond to the various study arms. | + | ==== Accessing |
+ | To access the CER Export page, select Export from the AutoLit menu, and then in the resulting page, toggle to "CER Builder." | ||
- | ===== Exporting Risk of Bias ===== | + | {{ : |
- | Risk of Bias outputs are exported separately from all other study data. If you would prefer to export | + | ==== Exporting Documents and Data ==== |
+ | |||
+ | In the CER Builder, you have the options | ||
+ | |||
+ | === 1. Literature Search Export === | ||
+ | |||
+ | To export | ||
+ | |||
+ | Then, choose whether to export as a .docx or a .csv, and select " | ||
+ | |||
+ | {{:wiki: | ||
+ | |||
+ | === 2. Screening Export === | ||
+ | |||
+ | To export a record of all studies Screened in your nest, with full citation information and links to full texts, as well as the Screening status and (if excluded) the Exclusion Reason, select " | ||
+ | |||
+ | {{: | ||
+ | |||
+ | Then, choose whether to export as a .docx or a .csv, and select " | ||
+ | |||
+ | {{: | ||
- | - Navigate to the Export page | ||
- | - Toggle to " | ||
- | - Choose whether to export Included-only (default) or all studies | ||
- | - If your Risk of Bias was assessed at the Data Element level, select which Data Element(s) to export. If your Risk of Bias was study-level (as in the visual below), this option will be greyed out. | ||
- | - When ready, select " | ||
- | {{: | + | ===== Export All Data or Export RIS Files ===== |
+ | These functions have been moved to [[wiki: | ||