commonmeta-ruby 3.3.18 → 3.4.1

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Files changed (40) hide show
  1. checksums.yaml +4 -4
  2. data/Gemfile.lock +33 -29
  3. data/lib/commonmeta/crossref_utils.rb +22 -0
  4. data/lib/commonmeta/readers/json_feed_reader.rb +19 -1
  5. data/lib/commonmeta/schema_utils.rb +1 -1
  6. data/lib/commonmeta/version.rb +1 -1
  7. data/resources/{commonmeta_v0.9.2.json → commonmeta_v0.9.3.json} +32 -2
  8. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/blog_post_with_non-url_id.yml +84 -18
  9. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/blogger_post.yml +42 -14
  10. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_with_author_name_suffix.yml +184 -55
  11. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_with_doi.yml +76 -15
  12. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_with_institutional_author.yml +33 -12
  13. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_with_organizational_author.yml +44 -11
  14. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_with_related_identifiers.yml +366 -0
  15. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/ghost_post_without_doi.yml +144 -11
  16. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/jekyll_post.yml +42 -13
  17. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/jekyll_post_with_anonymous_author.yml +17 -13
  18. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/substack_post_with_broken_reference.yml +557 -262
  19. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/syldavia_gazette_post_with_references.yml +76 -47
  20. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/upstream_post_with_references.yml +303 -123
  21. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/wordpress_post.yml +108 -12
  22. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/wordpress_post_with_many_references.yml +3048 -441
  23. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/wordpress_post_with_references.yml +178 -31
  24. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/get_json_feed_item_metadata/wordpress_post_with_tracking_code_on_url.yml +139 -17
  25. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/another_schema_org_from_front-matter.yml +47 -48
  26. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/journal_article.yml +5 -5
  27. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/journal_article_from_datacite.yml +7 -7
  28. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_from_rogue_scholar_with_anonymous_author.yml +17 -13
  29. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_from_rogue_scholar_with_doi.yml +108 -12
  30. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_from_rogue_scholar_with_organizational_author.yml +44 -11
  31. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_from_rogue_scholar_with_relations.yml +366 -0
  32. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_from_upstream_blog.yml +200 -11
  33. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/json_feed_item_with_references.yml +303 -123
  34. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/posted_content.yml +16 -16
  35. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/schema_org_from_another_science_blog.yml +17 -17
  36. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/schema_org_from_front_matter.yml +111 -113
  37. data/spec/fixtures/vcr_cassettes/Commonmeta_Metadata/write_metadata_as_crossref/schema_org_from_upstream_blog.yml +64 -57
  38. data/spec/readers/json_feed_reader_spec.rb +85 -57
  39. data/spec/writers/crossref_xml_writer_spec.rb +76 -40
  40. metadata +6 -4
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+ points to a <em>prescriptiveness trade-off</em> when writing preregistered
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+ plans: All other things being equal, plans that are more prescriptive are
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+ more likely to result in deviations that turn their confirmatory tests into
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+ exploratory tests, and plans that are less prescriptive are more likely to
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+ result in confirmatory tests that are susceptible to questionable research
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+ practices. I also consider Van Drimmelen’s idea that researchers may make
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+ unconscious, implicit decisions during the research process. I relate these
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+ implicit decisions to Rumsfeld’s (2002) concept of <em>unknown unknowns</em>:
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+ “the things we don’t know we don’t know”! I argue that scientists can report
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+ their <em>known knowns</em> (what they know they did and found), and they
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+ can be transparent and speculative about their <em>known unknowns</em> (what
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+ they know they didn’t do and may find), but that they can’t say much about
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+ their <em>unknown unknowns </em>(including their unconscious, implicit decisions)
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+ because, by definition, they don’t know what they are! Nonetheless, I think
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+ that it’s important to acknowledge unknown unknowns in science because doing
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+ so helps to contextualise research efforts as being highly tentative and fallible.</p><h4>Introduction</h4><p>The
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+ videos of the presentations at the Metascience2023 conference were recently
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+ made available <a href=\"https://www.youtube.com/playlist?list=PLChfyH8TVDGlPTcKrVboBaf6QAGSJt1hQ\">here</a>.
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+ One that caught my eye is by Tom van Drimmelen, titled “Researchers’ decision
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+ making: Navigating ambiguity in research practice”: </p><div id=\"youtube2-5omWDTPcsNo\"
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+ class=\"youtube-wrap\" data-attrs=\"{&quot;videoId&quot;:&quot;5omWDTPcsNo&quot;,&quot;startTime&quot;:null,&quot;endTime&quot;:null}\"
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+ frameborder=\"0\" loading=\"lazy\" gesture=\"media\" allow=\"autoplay; fullscreen\"
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+ allowautoplay=\"true\" allowfullscreen=\"true\" width=\"728\" height=\"409\"></iframe></div></div><p>Here,
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+ I summarise Van Drimmelen’s excellent work and share my thoughts on his ideas.</p><h4>What
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+ is Researcher Discretion?</h4><p>Van Drimmelen (2023) explained that, during
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+ the research process, researchers have discretion over numerous decisions
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+ that they make about their methodology and analyses. During the data analysis
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+ stage, this <em>researcher discretion</em> may be perceived negatively as
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+ <em>researcher degrees of freedom</em> that is susceptible to <em>researcher
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+ bias</em> and <em>questionable research practices</em> (John et al., 2012;
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+ Simmons et al., 2011).</p><div class=\"captioned-image-container\"><figure><a
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+ x1=\"21\" x2=\"14\" y1=\"3\" y2=\"10\"></line><line x1=\"3\" x2=\"10\" y1=\"21\"
107
+ y2=\"14\"></line></svg></div></div></a><figcaption class=\"image-caption\"><em>Figure
108
+ 1. </em>Tom van Drimmelen illustrates the numerous decisions that researchers
109
+ make during the research process.</figcaption></figure></div><h4>Researcher
110
+ Discretion Emerges in Both Over- and Under-Determined Research Plans</h4><p>In
111
+ theory, it is possible to reduce and/or reveal researcher discretion during
112
+ data analyses by preregistering one or more methodological and analytical
113
+ research paths. However, Van Drimmelen (2023) and colleagues were interested
114
+ in how researcher discretion operates <em>in practice</em>. To investigate,
115
+ they conducted an ethnographic study in which they observed researcher discretion
116
+ in two different research groups. They found that researcher discretion emerged
117
+ when researchers used two categories of research plan.</p><p>1.&nbsp;&nbsp;&nbsp;&nbsp;
118
+ <em>Underdetermined plans</em>: Researcher discretion emerged when research
119
+ plans were not precise enough to determine specific actions for the researchers.
120
+ In this case, researchers needed to use their own discretion to fill in the
121
+ gaps of the research plan and figure out how to proceed. Researchers often
122
+ find themselves in this situation because preregistered research plans are
123
+ often vague (e.g., Bakker et al., 2020; Heirene et al., 2021; Van den Akker
124
+ et al., 2023).</p><p>2.&nbsp;&nbsp;&nbsp;&nbsp; <em>Overdetermined plans</em>:
125
+ Researcher discretion also emerged when there were unforeseen changes in the
126
+ research situation that made the original research plan undesirable or impossible,
127
+ necessitating an alternative research approach. Again, this situation is common,
128
+ because most researchers do not possess “godlike planning abilities” (Navarro,
129
+ 2020). To attempt to address this issue, researchers can preregister “if…then”
130
+ contingencies (i.e., decision trees) that accommodate <em>anticipated</em>
131
+ changes in the research situation (Nosek et al., 2018, p. 2602). In addition,
132
+ it may be possible to update a preregistered analysis plan prior to the data
133
+ analysis in order to take account of <em>unanticipated</em> events (Nosek
134
+ et al., 2019, p. 817). However, it is often the case that <em>unanticipated</em>
135
+ events arise <em>during data analyses</em>. As Reinhart (2015, p. 95) explained
136
+ (paraphrasing Helmuth von Moltke), “no analysis plan survives contact with
137
+ the data.” In these cases, researchers either need to stick to an inadequate
138
+ preregistered analysis plan or deviate and adapt their approach to address
139
+ the current situation. The evidence shows that researchers often deviate from
140
+ their preregistered plans (e.g., Abrams et al., 2020; Claesen et al., 2021;
141
+ Heirene et al., 2021).</p><h4>A Prescriptiveness Trade-Off in Preregistered
142
+ Plans</h4><p>Van Drimmelen’s (2023) work shows us that researchers are forced
143
+ to either deviate from overdetermined plans to overcome unforeseen events
144
+ or fill in the gaps of vague, underdetermined plans. Hence, researcher discretion
145
+ emerges in the case of both over- and under-determined plans. As Van Drimmelen
146
+ (2023) put it, “researcher discretion is an integral and unavoidable part
147
+ of the research practice.”</p><p>I think Van Drimmelen’s (2023) evidence also
148
+ points to a trade-off between the prescriptiveness of preregistered research
149
+ plans and the feasibility of their implementation in an unpredictable world.
150
+ As preregistered plans become more precise and prescriptive, there is a greater
151
+ chance that researchers will need to deviate from them in order to accommodate
152
+ unforeseen and/or uncontrolled events that occur during the implementation
153
+ of the plan. For example, researchers are more likely to deviate from a plan
154
+ to test “300 participants” than they are to deviate from a less prescriptive
155
+ plan to test “<em>around</em> 300 participants,” because uncontrolled events
156
+ (e.g., the number of participant exclusions during data analysis) may result
157
+ in a final sample size that is only close to 300 participants and not exactly
158
+ 300 participants (e.g., Claesen et al., 2021, pp. 6-7). Consequently, as preregistered
159
+ plans become more prescriptive, they are more likely to result in deviations
160
+ that turn their planned confirmatory tests into unplanned exploratory tests.<sup>1</sup>
161
+ Of course, preregistration continues to distinguish between confirmatory and
162
+ exploratory tests in this situation, and it prevents exploratory tests from
163
+ being falsely portrayed as confirmatory tests. Nonetheless, it remains the
164
+ case that, as plans for confirmatory tests become more prescriptive, the actual
165
+ implementation of these confirmatory tests in the real world becomes less
166
+ likely.</p><p>On the other hand, as preregistered plans become vaguer and
167
+ less prescriptive, confirmatory hypothesis tests will become not only more
168
+ feasible to achieve without deviation, but also more susceptible to researcher
169
+ degrees of freedom and questionable research practices. For example, it is
170
+ more feasible to test “<em>around</em> 300 participants” than to test exactly
171
+ “300 participants.” However, the first sampling plan does not prevent the
172
+ questionable research practice of optional stopping (John et al., 2021; Simmons
173
+ et al., 2011), whereas the second, more prescriptive plan does.</p><p>In summary,
174
+ researchers need to consider a <em>prescriptiveness trade-off </em>when writing
175
+ their preregistered plans: All other things being equal, plans that are more
176
+ prescriptive are more likely to result in deviations that turn their confirmatory
177
+ tests into exploratory tests, and plans that are less prescriptive are more
178
+ likely to result in confirmatory tests that are susceptible to questionable
179
+ research practices. Hence, researchers face a difficult choice between prescriptive
180
+ confirmatory tests that they are less likely to carry out in practice and
181
+ vague confirmatory tests that are more prone to questionable research practices.</p><div
182
+ class=\"captioned-image-container\"><figure><a class=\"image-link is-viewable-img
183
+ image2\" target=\"_blank\" href=\"https://substackcdn.com/image/fetch/f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg\"
184
+ data-component-name=\"Image2ToDOM\"><div class=\"image2-inset\"><picture><source
185
+ type=\"image/webp\" srcset=\"https://substackcdn.com/image/fetch/w_424,c_limit,f_webp,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg
186
+ 424w, https://substackcdn.com/image/fetch/w_848,c_limit,f_webp,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg
187
+ 848w, https://substackcdn.com/image/fetch/w_1272,c_limit,f_webp,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg
188
+ 1272w, https://substackcdn.com/image/fetch/w_1456,c_limit,f_webp,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg
189
+ 1456w\" sizes=\"100vw\"><img src=\"https://substackcdn.com/image/fetch/w_1456,c_limit,f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg\"
190
+ width=\"284\" height=\"429.408\" data-attrs=\"{&quot;src&quot;:&quot;https://substack-post-media.s3.amazonaws.com/public/images/26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg&quot;,&quot;srcNoWatermark&quot;:null,&quot;fullscreen&quot;:null,&quot;imageSize&quot;:null,&quot;height&quot;:756,&quot;width&quot;:500,&quot;resizeWidth&quot;:284,&quot;bytes&quot;:93786,&quot;alt&quot;:null,&quot;title&quot;:null,&quot;type&quot;:&quot;image/jpeg&quot;,&quot;href&quot;:null,&quot;belowTheFold&quot;:true,&quot;topImage&quot;:false,&quot;internalRedirect&quot;:null}\"
191
+ class=\"sizing-normal\" alt=\"\" srcset=\"https://substackcdn.com/image/fetch/w_424,c_limit,f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg
192
+ 424w, https://substackcdn.com/image/fetch/w_848,c_limit,f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg
193
+ 848w, https://substackcdn.com/image/fetch/w_1272,c_limit,f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg
194
+ 1272w, https://substackcdn.com/image/fetch/w_1456,c_limit,f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F26ad757c-146e-4d8f-88a5-f34cf5c71c58_500x756.jpeg
195
+ 1456w\" sizes=\"100vw\" loading=\"lazy\"></picture><div class=\"image-link-expand\"><svg
196
+ xmlns=\"http://www.w3.org/2000/svg\" width=\"16\" height=\"16\" viewBox=\"0
197
+ 0 24 24\" fill=\"none\" stroke=\"#FFFFFF\" stroke-width=\"2\" stroke-linecap=\"round\"
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+ stroke-linejoin=\"round\" class=\"lucide lucide-maximize2\"><polyline points=\"15
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+ 3 21 3 21 9\"></polyline><polyline points=\"9 21 3 21 3 15\"></polyline><line
200
+ x1=\"21\" x2=\"14\" y1=\"3\" y2=\"10\"></line><line x1=\"3\" x2=\"10\" y1=\"21\"
201
+ y2=\"14\"></line></svg></div></div></a></figure></div><h4>Researchers Sometimes
202
+ Make Implicit Decisions</h4><p>Van Drimmelen and colleagues (2023) also identified
203
+ another interesting issue in their work. At times, they found it difficult
204
+ to identify researcher discretion because there were multiple potential methodological
205
+ or analytical approaches available that researchers did not consider. In other
206
+ words, sometimes <em>researchers</em> <em>were not aware that they were making
207
+ decisions</em>!</p><p>This idea of unconscious and implicit research decisions
208
+ reminds me of something that Donald Rumsfeld, the United States Secretary
209
+ of Defence, said at a press briefing in 2002:</p><blockquote><p>There are
210
+ known knowns; there are things we know we know. We also know there are known
211
+ unknowns; that is to say we know there are some things we do not know. But
212
+ there are also unknown unknowns—the ones we don’t know we don’t know. (Wikipedia,
213
+ 2023)</p></blockquote><p>In the context of Figure 1, our <em>known knowns</em>
214
+ are the path or paths that we reported following in our research (e.g., the
215
+ green paths). In these cases, we know what we did, and we know what we found
216
+ as a result. In contrast, our <em>known unknowns</em> are the paths that we
217
+ actively decided not to follow (e.g., all the other paths in Figure 1). We
218
+ know these paths exist, but we don’t yet know what results lie at the end
219
+ of them.</p><p>But what about our <em>unknown unknowns</em>? These paths don’t
220
+ appear in Figure 1! They relate to decisions that we didn’t even consider,
221
+ at least not at a conscious level. For example, we may not have considered
222
+ the time of day of testing, the ambient temperature, or a host of other unspecified
223
+ variables that may be influential on our results. Instead, we unconsciously
224
+ relegated these unknown unknowns to a <em>ceteris paribus</em> clause (i.e.,
225
+ “all other things being equal”), which assumes that no other influential factors
226
+ are at play (Meehl, 1990). The problem is that our unconscious and implicit
227
+ decision to assume the irrelevance of these factors may be wrong! Indeed,
228
+ the history of science is full of cases in which factors that were not initially
229
+ considered to be important subsequently turned out to be crucial moderators
230
+ or boundary conditions of effects (for some examples, see Firestein, 2016).</p><div
231
+ class=\"captioned-image-container\"><figure><a class=\"image-link is-viewable-img
232
+ image2\" target=\"_blank\" href=\"https://substackcdn.com/image/fetch/f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg\"
233
+ data-component-name=\"Image2ToDOM\"><div class=\"image2-inset\"><picture><source
234
+ type=\"image/webp\" srcset=\"https://substackcdn.com/image/fetch/w_424,c_limit,f_webp,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg
235
+ 424w, https://substackcdn.com/image/fetch/w_848,c_limit,f_webp,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg
236
+ 848w, https://substackcdn.com/image/fetch/w_1272,c_limit,f_webp,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg
237
+ 1272w, https://substackcdn.com/image/fetch/w_1456,c_limit,f_webp,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg
238
+ 1456w\" sizes=\"100vw\"><img src=\"https://substackcdn.com/image/fetch/w_1456,c_limit,f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg\"
239
+ width=\"296\" height=\"444\" data-attrs=\"{&quot;src&quot;:&quot;https://substack-post-media.s3.amazonaws.com/public/images/96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg&quot;,&quot;srcNoWatermark&quot;:null,&quot;fullscreen&quot;:null,&quot;imageSize&quot;:null,&quot;height&quot;:750,&quot;width&quot;:500,&quot;resizeWidth&quot;:296,&quot;bytes&quot;:89822,&quot;alt&quot;:null,&quot;title&quot;:null,&quot;type&quot;:&quot;image/jpeg&quot;,&quot;href&quot;:null,&quot;belowTheFold&quot;:true,&quot;topImage&quot;:false,&quot;internalRedirect&quot;:null}\"
240
+ class=\"sizing-normal\" alt=\"\" srcset=\"https://substackcdn.com/image/fetch/w_424,c_limit,f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg
241
+ 424w, https://substackcdn.com/image/fetch/w_848,c_limit,f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg
242
+ 848w, https://substackcdn.com/image/fetch/w_1272,c_limit,f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg
243
+ 1272w, https://substackcdn.com/image/fetch/w_1456,c_limit,f_auto,q_auto:good,fl_progressive:steep/https%3A%2F%2Fsubstack-post-media.s3.amazonaws.com%2Fpublic%2Fimages%2F96e8d69a-f2c1-4c22-b375-8c5c4fd72689_500x750.jpeg
244
+ 1456w\" sizes=\"100vw\" loading=\"lazy\"></picture><div class=\"image-link-expand\"><svg
245
+ xmlns=\"http://www.w3.org/2000/svg\" width=\"16\" height=\"16\" viewBox=\"0
246
+ 0 24 24\" fill=\"none\" stroke=\"#FFFFFF\" stroke-width=\"2\" stroke-linecap=\"round\"
247
+ stroke-linejoin=\"round\" class=\"lucide lucide-maximize2\"><polyline points=\"15
248
+ 3 21 3 21 9\"></polyline><polyline points=\"9 21 3 21 3 15\"></polyline><line
249
+ x1=\"21\" x2=\"14\" y1=\"3\" y2=\"10\"></line><line x1=\"3\" x2=\"10\" y1=\"21\"
250
+ y2=\"14\"></line></svg></div></div></a></figure></div><h4>We Can’t Be Transparent
251
+ About Unknown Unknowns, But We Should Acknowledge They Exist!</h4><p>Van Drimmelen
252
+ (2023) concluded that “we might not be able to be effectively transparent
253
+ because <em>we don’t know which decisions we’ve actually made</em>” (my emphasis).
254
+ In other words, our lack of awareness about our potentially important implicit
255
+ decisions means that we can’t be transparent about them: We can report our
256
+ known knowns, and we can be transparent and speculative about our known unknowns,
257
+ but we can’t say much about our unknown unknowns because we don’t know what
258
+ they are! By definition, as soon as we start to speculate on a potentially
259
+ influential factor in our research, it becomes a <em>known</em> unknown about
260
+ which we need to make conscious decisions!</p><p>Despite our inability to
261
+ specify our unknown unknowns, Van Drimmelen’s (2023) work reminds us that
262
+ it’s important to acknowledge this type of ignorance in science because it
263
+ helps to contextualise our research efforts as being highly tentative and
264
+ fallible steps in a collective process of discovery and theory development.
265
+ Acknowledging our unknown unknowns also helps to address recent calls for
266
+ greater intellectual humility and modesty in science (Hoekstra &amp; Vazire,
267
+ 2021; Ramsey, 2021).</p><p>I’ll end with a nice example of scientists acknowledging
268
+ unknown unknowns. Here’s Errington et al. (2021, p. 12) discussing the challenges
269
+ of assessing replicability in preclinical cancer biology:</p><blockquote><p>It
270
+ might also be that, in some cases, a failure to replicate was caused by the
271
+ replication team deviating from the protocol in some way that was not recognized,
272
+ or that a key part of the procedure was left out of the protocol inadvertently.
273
+ It is also possible that the effect reported in the original paper depended
274
+ on methodological factors that were not identified by original authors, the
275
+ replication team, or any other experts involved in the peer review of the
276
+ original paper or the Registered Report.</p></blockquote><h4>References</h4><p>Abrams,
277
+ E., Libgober, J., &amp; List, J. A. (2020). Research registries: Facts, myths,
278
+ and possible improvements (No. w27250). <em>National Bureau of Economic Research.
279
+ </em><a href=\"https://doi.org/10.3386/w27250\">https://doi.org/10.3386/w27250</a></p><p>Bakker,
280
+ M., Veldkamp, C. L., van Assen, M. A., Crompvoets, E. A., Ong, H. H., Nosek,
281
+ B. A.,…&amp; Wicherts, J. M. (2020). Ensuring the quality and specificity
282
+ of preregistrations. <em>PLoS Biology, 18</em>(12), e3000937. <a href=\"https://doi.org/10.1371/journal.pbio.3000937\">https://doi.org/10.1371/journal.pbio.3000937</a></p><p>Claesen,
283
+ A., Gomes, S., Tuerlinckx, F., Vanpaemel, W., &amp; Leuven, K. U. (2021).
284
+ Comparing dream to reality: An assessment of adherence of the first generation
285
+ of preregistered studies. <em>Royal Society Open Science, 8</em>(10), 1–11.
286
+ <a href=\"https://doi.org/10.1098/rsos.211037\">https://doi.org/10.1098/rsos.211037</a></p><p>Errington,
287
+ T. M., Denis, A., Perfito, N., Iorns, E., &amp; Nosek, B. A. (2021). Reproducibility
288
+ in cancer biology: Challenges for assessing replicability in preclinical cancer
289
+ biology. <em>Elife, 10,</em> Article e67995. <a href=\"https://doi.org/10.7554/eLife.67995\">https://doi.org/10.7554/eLife.67995</a></p><p>Fife,
290
+ D., &amp; Rodgers, J. L. (2019). Moving beyond the \"replication crisis\":
291
+ Understanding the exploratory/confirmatory data analysis continuum. <em>PsyArXiv</em>.
292
+ <a href=\"https://doi.org/10.31234/osf.io/5vfq6\">https://doi.org/10.31234/osf.io/5vfq6</a></p><p>Firestein,
293
+ S. (2016, February 14). Why failure to replicate findings can actually be
294
+ good for science. <em>LA Times.</em> <a href=\"https://www.latimes.com/opinion/op-ed/la-oe-0214-firestein-science-replication-failure-20160214-story.html\">https://www.latimes.com/opinion/op-ed/la-oe-0214-firestein-science-replication-failure-20160214-story.html</a></p><p>Heirene,
295
+ R., LaPlante, D., Louderback, E. R., Keen, B., Bakker, M., Serafimovska, A.,
296
+ &amp; Gainsbury, S. M. (2021). Preregistration specificity &amp; adherence:
297
+ A review of preregistered gambling studies &amp; cross-disciplinary comparison.
298
+ <em>PsyArXiv</em>. <a href=\"https://psyarxiv.com/nj4es/\">https://psyarxiv.com/nj4es/</a></p><p>Hoekstra,
299
+ R., &amp; Vazire, S. (2021). Aspiring to greater intellectual humility in
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+ science. <em>Nature Human Behaviour, 5</em>(12), 1602-1607. <a href=\"https://doi.org/10.1038/s41562-021-01203-8\">https://doi.org/10.1038/s41562-021-01203-8</a></p><p>John,
301
+ L. K., Loewenstein, G., &amp; Prelec, D. (2012). Measuring the prevalence
302
+ of questionable research practices with incentives for truth telling. <em>Psychological
303
+ Science, 23</em>(5), 524–532. <a href=\"https://doi.org/10.1177/0956797611430953\">https://doi.org/10.1177/0956797611430953</a></p><p>Meehl,
304
+ P. E. (1990). Appraising and amending theories: The strategy of Lakatosian
305
+ defense and two principles that warrant it. <em>Psychological Inquiry, 1</em>(2),
306
+ 108-141. <a href=\"https://doi.org/10.1207/s15327965pli0102_1\">https://doi.org/10.1207/s15327965pli0102_1</a></p><p>Navarro,
307
+ D. (2020, September 23). Paths in strange spaces: A comment on preregistration.<em>
308
+ PsycArXiv. </em><a href=\"https://doi.org/10.31234/osf.io/wxn58\">https://doi.org/10.31234/osf.io/wxn58</a></p><p>Nosek,
309
+ B. A., Beck, E. D., Campbell, L., Flake, J. K., Hardwicke, T. E., Mellor,
310
+ D. T., van ‘t Veer, A. E., &amp; Vazire, S. (2019). Preregistration is hard,
311
+ and worthwhile. <em>Trends in Cognitive Sciences, 23,</em> 815–818. <a href=\"https://doi.org/10.1016/j.tics.2019.07.009\">https://doi.org/10.1016/j.tics.2019.07.009</a></p><p>Ramsey,
312
+ R. (2021). A call for greater modesty in psychology and cognitive neuroscience.
313
+ <em>Collabra: Psychology, 7</em>(1), 24091. <a href=\"https://doi.org/10.1525/collabra.24091\">https://doi.org/10.1525/collabra.24091</a></p><p>Reinhart,
314
+ A. (2015). <em>Statistics done wrong: The woefully complete guide.</em> No
315
+ Starch Press.</p><p>Simmons, J. P., Nelson, L. D., &amp; Simonsohn, U. (2011).
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+ False-positive psychology: Undisclosed flexibility in data collection and
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+ analysis allows presenting anything as significant. <em>Psychological Science,
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+ 22(</em>11), 1359–1366. <a href=\"https://doi.org/10.1177%20/0956797611417632\">https://doi.org/10.1177
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+ /0956797611417632</a></p><p>Van den Akker, O., Bakker, M., van Assen, M. A.
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+ L. M., Pennington, C. R., Verweij, L., Elsherif, M. M.,…Wicherts, J. M. (2023,
321
+ May 10). The effectiveness of preregistration in psychology: Assessing preregistration
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+ strictness and preregistration-study consistency. <em>PsyArXiv</em>. <a href=\"https://doi.org/10.31222/osf.io/h8xjw\">https://doi.org/10.31222/osf.io/h8xjw</a></p><p>Van
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+ Drimmelen, T., Slagboom, N., Reis, R., Bouter, L., Van der Steen, J. (2023,
324
+ May 9). <em>Researchers’ decision making: Navigating ambiguity in research
325
+ practice.</em> Metascience2023, Washington, DC. Abstract: <a href=\"https://metascience.info/events/researchers-decision-making-navigating-ambiguity-in-research-practice/\">https://metascience.info/events/researchers-decision-making-navigating-ambiguity-in-research-practice/</a>
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+ Preregistration: <a href=\"https://osf.io/tqwgp/\">https://osf.io/tqwgp/</a></p><p>Wikipedia.
327
+ (2023, March 16). There are unknown unknowns. <em>Wikipedia</em>. https://en.wikipedia.org/wiki/There_are_unknown_unknowns</p><h4>Endnotes</h4><p>1.&nbsp;Here,
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+ I define confirmatory tests as planned tests, and exploratory tests as unplanned
329
+ tests. This conceptualization is consistent with the frequentist rationale
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+ for preregistration, according to which unplanned tests undermine assumptions
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+ regarding Type I error rates (Nosek et al., 2019, p. 816). I acknowledge that
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+ there are other definitions for “confirmatory” and “exploratory”, including
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+ definitions that view them as existing at opposite ends of a continuum rather
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+ than as discrete categories (e.g., Fife &amp; Rodgers, 2019). According to
335
+ this continuum perspective, larger deviations from preregistered plans result
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+ in “more exploratory” tests than smaller deviations. I don’t subscribe to
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+ this continuum perspective, because it is unclear how to formally assess some
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+ deviations as being “larger” or “smaller” than others. I agree that research
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+ studies can be described as being more confirmatory or exploratory, because
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+ they can contain a greater proportion of planned or unplanned tests. However,
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+ in my view, the tests themselves can only be either confirmatory or exploratory,
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+ because they can only be either planned or unplanned.</p><h4>Acknowledgements</h4><p>I’m
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+ grateful to Tom van Drimmelen for his comments on an earlier version of this
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+ article.</p><h4>PDF Download</h4><p>You can download a PDF version of this
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+ article <a href=\"https://doi.org/10.31222/osf.io/3t7pc\">here</a>.</p><h4>Reference</h4><p>The
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+ reference for this article is:</p><p>Rubin, M. (2023, June 7). The preregistration
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+ prescriptiveness trade-off and unknown unknowns in science: Comments on Van
348
+ Drimmelen (2023). <em>Critical Metascience: MetaArXiv</em>. <a href=\"https://doi.org/10.31222/osf.io/3t7pc\">https://doi.org/10.31222/osf.io/3t7pc</a></p><h4>Please
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+ Subscribe and/or Share!</h4><p class=\"button-wrapper\" data-attrs=\"{&quot;url&quot;:&quot;https://markrubin.substack.com/subscribe?&quot;,&quot;text&quot;:&quot;Subscribe
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+ class=\"button primary\" href=\"https://markrubin.substack.com/subscribe?\"><span>Subscribe
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+ Rubin"}],"image":"https://substack-post-media.s3.amazonaws.com/public/images/195477de-91ce-4a76-bae8-b6334fb5bcc7_500x379.jpeg","tags":["Metascience","Researcher
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