{"doi":"10.1371/journal.pcbi.1007128","title":"Open collaborative writing with Manubot","abstract":"Open, collaborative research is a powerful paradigm that can immensely strengthen the scientific process by integrating broad and diverse expertise. However, traditional research and multi-author writing processes break down at scale. We present new software named Manubot, available at https://manubot.org, to address the challenges of open scholarly writing. Manubot adopts the contribution workflow used by many large-scale open source software projects to enable collaborative authoring of scholarly manuscripts. With Manubot, manuscripts are written in Markdown and stored in a Git repository to precisely track changes over time. By hosting manuscript repositories publicly, such as on GitHub, multiple authors can simultaneously propose and review changes. A cloud service automatically evaluates proposed changes to catch errors. Publication with Manubot is continuous: When a manuscript's source changes, the rendered outputs are rebuilt and republished to a web page. Manubot automates bibliographic tasks by implementing citation by identifier, where users cite persistent identifiers (e.g. DOIs, PubMed IDs, ISBNs, URLs), whose metadata is then retrieved and converted to a user-specified style. Manubot modernizes publishing to align with the ideals of open science by making it transparent, reproducible, immediate, versioned, collaborative, and free of charge.","journal":"PLOS Computational Biology","year":2019,"id":1953,"datarank":4.247613242097367,"base_score":4.430816798843313,"endowment":4.430816798843313,"self_citation_contribution":0.6646225198264971,"citation_network_contribution":3.5829907222708703,"self_endowment_contribution":0.6646225198264971,"citer_contribution":3.5829907222708703,"corpus_percentile":null,"corpus_rank":null,"citation_count":83,"citer_count":58,"citers_with_citation_signal":49,"citers_with_endowment":49,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.0417,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2019-06-24","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":6612,"name":"Vincent Rubinetti","orcid":"0000-0002-4655-3773","position":1,"is_corresponding":false},{"id":22172,"name":"David R. Slochower","orcid":"0000-0003-3928-5050","position":2,"is_corresponding":false},{"id":22173,"name":"Dongbo Hu","orcid":"0000-0001-7870-8242","position":3,"is_corresponding":false},{"id":22174,"name":"Venkat S. Malladi","orcid":"0000-0002-0144-0564","position":4,"is_corresponding":false},{"id":308,"name":"Casey S. Greene","orcid":"0000-0001-8713-9213","position":5,"is_corresponding":false},{"id":6576,"name":"Anthony Gitter","orcid":"0000-0002-5324-9833","position":6,"is_corresponding":false},{"id":1208,"name":"Daniel S. Himmelstein","orcid":"0000-0002-3012-7446","position":0,"is_corresponding":true}],"reference_count":97,"raw_metadata":{"citation_network_status":"fetched"},"created_at":"2026-03-01T18:20:47.508186Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}