diff --git a/scoping_review.qmd b/scoping_review.qmd index 04e6167..a4187c5 100644 --- a/scoping_review.qmd +++ b/scoping_review.qmd @@ -417,17 +417,25 @@ and the sources will be added to the sample to undergo the same screening proces #| echo: false #| output: asis -FULL_RAW_SAMPLE_NOTHING_REMOVED = 2396 -FULL_SAMPLE_DUPLICATES_REMOVED = 2381 nr_database_query_raw = len(bib_sample_raw_db.entries) -nr_out_duplicates = FULL_RAW_SAMPLE_NOTHING_REMOVED - FULL_SAMPLE_DUPLICATES_REMOVED -nr_other_sources = (FULL_SAMPLE_DUPLICATES_REMOVED + nr_out_duplicates) - nr_database_query_raw +nr_snowballing_raw = 2240 all_keywords = [entry["keywords"] for entry in bib_sample.entries if "keywords" in entry.fields_dict.keys()] +nr_database_deduplicated = len([1 for kw in all_keywords if "sample::database" in kw]) +nr_snowballing_deduplicated = len([1 for kw in all_keywords if "sample::snowballing" in kw]) nr_out_superseded = len([1 for kw in all_keywords if "out::superseded" in kw]) -nr_out_title = len([1 for kw in all_keywords if "out::title" in kw]) -nr_out_abstract = len([1 for kw in all_keywords if "out::abstract" in kw]) -nr_out_fulltext = len([1 for kw in all_keywords if "out::full-text" in kw]) + +FULL_RAW_SAMPLE_NOTHING_REMOVED = nr_database_query_raw + nr_snowballing_raw +FULL_SAMPLE_DUPLICATES_REMOVED = nr_database_deduplicated + nr_snowballing_deduplicated + nr_out_superseded + +NON_ZOTERO_CAPTURE_TITLE_REMOVAL = 1150 +NON_ZOTERO_CAPTURE_ABSTRACT_REMOVAL = 727 +NON_ZOTERO_CAPTURE_FULLTEXT_REMOVAL = 348 + +nr_out_duplicates = FULL_RAW_SAMPLE_NOTHING_REMOVED - FULL_SAMPLE_DUPLICATES_REMOVED +nr_out_title = len([1 for kw in all_keywords if "out::title" in kw]) + NON_ZOTERO_CAPTURE_TITLE_REMOVAL +nr_out_abstract = len([1 for kw in all_keywords if "out::abstract" in kw]) + NON_ZOTERO_CAPTURE_ABSTRACT_REMOVAL +nr_out_fulltext = len([1 for kw in all_keywords if "out::full-text" in kw]) + NON_ZOTERO_CAPTURE_FULLTEXT_REMOVAL nr_out_language = len([1 for kw in all_keywords if "out::language" in kw]) nr_extraction_done = len([1 for kw in all_keywords if "done::extracted" in kw]) @@ -441,15 +449,15 @@ print(f""" %%| fig-width: 6 flowchart TD; search_db["Records identified through database searching (n={nr_database_query_raw})"] --> starting_sample; - search_prev["Records identified through other sources (n={nr_other_sources})"] --> starting_sample["Starting sample (n={FULL_RAW_SAMPLE_NOTHING_REMOVED})"]; + search_prev["Records identified through other sources (n={nr_snowballing_raw})"] --> starting_sample["Starting sample (n={FULL_RAW_SAMPLE_NOTHING_REMOVED})"]; - starting_sample -- "Duplicate removal ({nr_out_duplicates+nr_out_superseded} removed) "--> dedup["Records after duplicates removed (n={len(bib_sample.entries)})"]; + starting_sample -- "Duplicate removal ({nr_out_duplicates+nr_out_superseded} removed) "--> dedup["Records after duplicates removed (n={FULL_SAMPLE_DUPLICATES_REMOVED})"]; - dedup -- "Title screening ({nr_out_title} excluded)" --> title_screened["Records after titles screened (n={len(bib_sample.entries) - nr_out_title})"]; + dedup -- "Title screening ({nr_out_title} excluded)" --> title_screened["Records after titles screened (n={FULL_SAMPLE_DUPLICATES_REMOVED - nr_out_title})"]; - title_screened -- "Abstract screening ({nr_out_abstract} excluded)"--> abstract_screened["Records after abstracts screened (n={len(bib_sample.entries)-nr_out_title-nr_out_abstract})"]; + title_screened -- "Abstract screening ({nr_out_abstract} excluded)"--> abstract_screened["Records after abstracts screened (n={FULL_SAMPLE_DUPLICATES_REMOVED-nr_out_title-nr_out_abstract})"]; - abstract_screened -- " Language screening ({nr_out_language} excluded) "--> language_screened["Records after language screened (n={len(bib_sample.entries)-nr_out_title-nr_out_abstract-nr_out_language})"]; + abstract_screened -- " Language screening ({nr_out_language} excluded) "--> language_screened["Records after language screened (n={FULL_SAMPLE_DUPLICATES_REMOVED-nr_out_title-nr_out_abstract-nr_out_language})"]; language_screened -- " Full-text screening ({nr_out_fulltext} excluded) "--> full-text_screened["Full-text articles assessed for eligibility (n={nr_extraction_done})"]; {t3} @@ -478,7 +486,7 @@ For a full list of validity ranks, see @apptbl-validity-external and @apptbl-val nr_relevant = len([1 for kw in all_keywords if "relevant" in kw]) ``` -The query execution results in an initial sample of `{python} nr_database_query_raw` potential studies identified from the database search as well as `{python} nr_other_sources` potential studies from other sources, leading to a total initial number of `{python} FULL_RAW_SAMPLE_NOTHING_REMOVED`. +The query execution results in an initial sample of `{python} nr_database_query_raw` potential studies identified from the database search as well as `{python} nr_snowballing_raw` potential studies from other sources, leading to a total initial number of `{python} FULL_RAW_SAMPLE_NOTHING_REMOVED`. This accounts for all identified studies without duplicate removal, without controlling for literature that has been superseded or applying any other screening criteria. Of these, `{python} nr_relevant` have been identified as potentially relevant studies for the purposes of this scoping review, from which `{python} nr_extraction_done` have been extracted.