Server,Method until 2018-12,Method from 2019-01,2019-06 notes
arXiv q-bio,"Copied direct from source (PrePubMed data by Jordan Anaya) at https://raw.githubusercontent.com/OmnesRes/prepub/master/analyses/preprint_data.txt; source last accessed Jan 15, 2019; data associated with MIT license for prepubmed website","Manual lookup: https://arxiv.org/list?archive=q-bio&year=YY&month=MM&submit=Go —- edit date (YY and MM) in URL or access this search from q-bio homepage (browse specific year/month), use total number of entries",
Nature Precedings,"Copied direct from source (PrePubMed data by Jordan Anaya) at https://raw.githubusercontent.com/OmnesRes/prepub/master/analyses/preprint_data.txt; source last accessed Jan 15, 2019; data associated with MIT license for prepubmed website","Not checked, inactive, use 0 as data",
F1000Research,"Copied direct from source (PrePubMed data by Jordan Anaya) at https://raw.githubusercontent.com/OmnesRes/prepub/master/analyses/preprint_data.txt; source last accessed Jan 15, 2019; data associated with MIT license for prepubmed website","Manual lookup: request number using https://f1000research.com/extapi/search?q=R_PUD:[]&wt=json -- in R_PUD:[] enter date frame as milliseconds e.g. [1556665200000 TO 1559343600000] for May 2019, look up value for <Month> 1 0:00:00 at http://www.ruddwire.com/handy-code/date-to-millisecond-calculators/#.Wx0yA0gvw4k (use ms values for <Month> 1 00 - <Next month> 1 00 as per 'Dates_in_ms'); lookup returns JSON file with number of entries and pages (note up to 100 results/page, not yet been more than 100)",consider how to limit to biology-relevant preprints only; currently includes all
PeerJ Preprints,"Copied direct from source (PrePubMed data by Jordan Anaya) at https://raw.githubusercontent.com/OmnesRes/prepub/master/analyses/preprint_data.txt; source last accessed Jan 15, 2019; data associated with MIT license for prepubmed website",Manual search: use https://peerj.com/preprints/2019/MM/?sort=published (update MM for month) then count number of version 1s on each result page using ctrl+f ‘version: 1’ --> sum all v1s across result pages for that month,consider how to limit to biology-relevant preprints only; currently includes all
bioRxiv,"Copied direct from source (PrePubMed data by Jordan Anaya) at https://raw.githubusercontent.com/OmnesRes/prepub/master/analyses/preprint_data.txt; source last accessed Jan 15, 2019; data associated with MIT license for prepubmed website","Manual lookup: use advanced search on website and enter dates (1 — 28/30/31 of month), use number of hits from this search",consider how to ensure only noting v1 submissions; may currently be an overestimate if counting all versions
Winnower,"Copied direct from source (PrePubMed data by Jordan Anaya) at https://raw.githubusercontent.com/OmnesRes/prepub/master/analyses/preprint_data.txt; source last accessed Jan 15, 2019; data associated with MIT license for prepubmed website","Not checked, inactive, use 0 as data",
preprints.org,"Copied direct from source (PrePubMed data by Jordan Anaya) at https://raw.githubusercontent.com/OmnesRes/prepub/master/analyses/preprint_data.txt; source last accessed Jan 15, 2019; data associated with MIT license for prepubmed website","Manual lookup: Use website to search for categories ['biology','medicine_pharmacology','life_sciences'] AND month (dates 1 to 28/30/31 that month), use total number records returned and sum across the 3 categories. See category data in 'Preprintsorg...' tab.",
Wellcome Open Research,"Copied direct from source (PrePubMed data by Jordan Anaya) at https://raw.githubusercontent.com/OmnesRes/prepub/master/analyses/preprint_data.txt; source last accessed Jan 15, 2019; data associated with MIT license for prepubmed website","Manual lookup: request number using https://wellcomeopenresearch.org/extapi/search?q=R_PUD:[]&wt=json -- in R_PUD:[] enter date frame as milliseconds e.g. [1556665200000 TO 1559343600000] for May 2019, look up value for <Month> 1 0:00:00 at http://www.ruddwire.com/handy-code/date-to-millisecond-calculators/#.Wx0yA0gvw4k (use ms values for <Month> 1 00 - <Next month> 1 00 as per 'Dates_in_ms'); lookup returns JSON file with number of entries and pages (note up to 100 results/page, not yet been more than 100)",