Marty Oehme
446db080f6
chore(code): Refactor yml loading code
...
Fix for new paths and restructure to have the from_yml and to_tsv
functions in the same data loading file.
Improved path behavior to resolve any paths to absolutes before
loading.
2023-12-07 13:04:29 +01:00
Marty Oehme
d3a6b1296b
chore(repo): Move extracted yml data to processed dir
...
Since it has been processed it should reside in the processed dir
2023-12-07 12:44:00 +01:00
Marty Oehme
4cc1fb8b34
chore(data): Update bib file associations
2023-12-07 12:40:44 +01:00
Marty Oehme
11ce772809
feat(data): Update query to actual WOS undertaken
2023-12-07 11:21:24 +01:00
Marty Oehme
90b23349b4
feat(notes): Ensure notes use embedded query
2023-12-07 11:21:10 +01:00
Marty Oehme
7329540465
feat(script): Move query to imported file
...
Moved search query to file which is imported and acts as
single source of truth for script, notes, etc.
2023-12-07 11:20:02 +01:00
Marty Oehme
1e4817196c
chore(script): Rename data paths
2023-12-07 11:20:01 +01:00
Marty Oehme
12704e64f5
feat(repo): Add edit task to poe
2023-12-07 11:06:48 +01:00
Marty Oehme
6130c79c53
feat(script): Add first gender annotations
2023-12-07 11:06:10 +01:00
Marty Oehme
9df67f6189
chore(data): Update bibkeys and files
2023-12-07 10:49:25 +01:00
Marty Oehme
ce2a231478
feat(data): Extract Stock2021
2023-12-07 10:49:08 +01:00
Marty Oehme
52f9d8635f
feat(repo): Add task runner for common operations
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Set up poethepoet for quarto rendering and previewing.
Can be invoked through `poetry preview` or `poetry render`.
Will for now only preview the main scoping review file.
2023-12-07 09:30:16 +01:00
Marty Oehme
fae59c5a7d
chore(repo): Update quarto html rendering
2023-12-07 09:21:30 +01:00
Marty Oehme
ff4af556a5
feat(scripts): Add figure for intervention and inequality types
2023-12-07 09:05:04 +01:00
Marty Oehme
3a4a7b5621
chore(scripts): Move notes to notes.qmd file
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Required for computational cells to be executed by quarto.
Also imported all the standard stuff for python ds to work.
2023-12-06 23:25:42 +01:00
Marty Oehme
b7e76b635a
chore(data): Add missing intervention type tags
2023-12-06 21:31:25 +01:00
Marty Oehme
6020d122b6
feat(script): Switch term tables to data driven design
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Moved term tables to data directory as csv files and included them
in main script from there, to function as single source of truth.
2023-12-06 17:38:54 +01:00
Marty Oehme
92a1162dce
chore(notes): Notify on source of truth for extraction
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Added small note on actual source of truth for extraction data in
data directory.
2023-12-06 17:12:38 +01:00
Marty Oehme
e8842144bd
feat(notes): Integrate dynamic inclusion criteria table
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Add same source-of-trugh inclusion table as integrated in the main
text, sourced directly form tsv in the data directory.
2023-12-06 17:09:52 +01:00
Marty Oehme
5cb794e1b5
chore(data): Add irrelevant extraction data deGeus2022
2023-12-06 17:06:20 +01:00
Marty Oehme
193f4d3b35
chore(notes): Make screening tool tags lists
2023-12-06 17:05:55 +01:00
Marty Oehme
6cd77a4909
feat(notes): Add global region to tags
2023-12-06 16:56:03 +01:00
Marty Oehme
7a3ed53ea1
fix(script): Correctly import relevant bibtex entries
2023-12-06 16:42:32 +01:00
Marty Oehme
1b660f9621
fix(script): Correct display of inclusion criteria table
2023-12-06 16:42:00 +01:00
Marty Oehme
d9cd5fad1a
feat(script): Add dynamic inclusion criteria table
...
In order to pursue single source of truth, we now
explicitly integrate the inclusion criteria table
from a tsv file in the data directory in the main
manuscript. Other locations should also make use
of that file to create their table.
2023-12-06 16:13:00 +01:00
Marty Oehme
b5c0df16e3
feat(script): Add dynamic screening flowchart
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Added mermaid flowchart showing the screening numbers, based on
dynamic calculations done at document rendering. Currently missing
some calculations (un-deduplicated numbers and final relevant number).
2023-12-06 16:13:00 +01:00
Marty Oehme
c7ac283ad5
feat(data): Unify interventions for childcare subsidy
2023-12-06 16:09:53 +01:00
Marty Oehme
b574084023
chore(code): Update live zotero citation plugin
2023-12-06 16:09:47 +01:00
Marty Oehme
46fa835d13
chore(data): Add working sample bibtex to repo data
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Added bibtex file containing the up-to-date working sample of the Zotero
library to data/intermediate. It can be used to count sources based on
their keywords such as how many were sorted out during which step,
which regions they belong to and so on.
2023-12-06 16:04:09 +01:00
Marty Oehme
3c6e166568
chore(data): Remove exploratory query data
2023-12-06 14:24:48 +01:00
Marty Oehme
4c493db50c
feat(data): Extract Hojman2019
2023-12-06 13:00:26 +01:00
Marty Oehme
8a3a244c54
feat(data): Extract Clark2019
2023-12-06 12:10:25 +01:00
Marty Oehme
6e8a7f2a1f
feat(data): Extract Broadway2020
2023-12-06 11:40:31 +01:00
Marty Oehme
2a3d282587
chore(data): Update lib
2023-12-06 11:16:22 +01:00
Marty Oehme
81720563cb
feat(data): Extract Chao2022
2023-12-06 11:16:22 +01:00
Marty Oehme
8c579315df
feat(data): Add indicator used to Debowicz2014
2023-12-06 11:05:40 +01:00
Marty Oehme
2d45f26a1f
chore(data): Fix Sotomayor publication date in name
2023-12-06 10:13:08 +01:00
Marty Oehme
40a3df132a
chore(repo): Fix links to bibtex file
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Fixed any relative links to the bibtex file for generating annotations
or similar.
2023-12-05 16:42:20 +01:00
Marty Oehme
82b0453187
chore(repo): Move supplementary data to data dir
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Since we now have a 'documentation' directory instead of a
'supplementary-data' one, actual supplementary data should
move to the actual data directory, which is what it does
with this commit.
2023-12-05 16:38:46 +01:00
Marty Oehme
3482115546
chore(repo): Rename supp data to documentation dir
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We predominantly keep documentation in here, so that is what it
should be called.
2023-12-05 16:37:43 +01:00
Marty Oehme
4e3a6da60b
chore(repo): Add output folder to git repository
2023-12-05 16:29:57 +01:00
Marty Oehme
c7533e01d6
feat(script): Add yaml simple yaml to dataframe loader
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Ingests all yaml files in the directory, and loads the data for each study.
Currently creates a dataframe for each *observation* in the pool (can be
multiple per study, if a study has multiple analyses for different
independent/dependent vars). This is to follow the tidy data paradigm
of one observation per row.
2023-12-05 16:24:11 +01:00
Marty Oehme
5b78a7fb1a
feat(data): Extract Debowicz2014, Sotomayor2020
2023-12-05 12:24:58 +01:00
Marty Oehme
e6b71ed6fc
chore(data): Remove unused intermediate papis lib
2023-12-05 08:15:47 +01:00
Marty Oehme
5a0f366b24
feat(notes): Add questions for next meeting
2023-12-04 20:34:40 +01:00
Marty Oehme
42cee69831
chore(data): Begin screening for title and abstract
2023-12-04 20:34:25 +01:00
Marty Oehme
d69eb0db17
chore(notes): Add year-tracker for screening pool
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Added simple tracker for years done in the screening pool,
and those still outstanding for now.
2023-12-04 20:33:46 +01:00
Marty Oehme
e63bf1c99c
feat(notes): Add screening tool with keywords
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Added a long list of all tags currently in use and
begin explaining what they are used for.
2023-12-04 20:33:07 +01:00
Marty Oehme
75783a48e2
chore(data): De-duplicate bibtex studies
2023-12-04 20:31:53 +01:00
Marty Oehme
dc91f4a4ff
chore(notes): Add raw source counts for each category
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Added raw (not yet de-deduplicated) source counts for each of the sample
categories (snowball sources, database queries).
2023-12-04 20:31:42 +01:00
Marty Oehme