@prefix this: . @prefix sub: . @prefix np: . @prefix dct: . @prefix pav: . @prefix rdf: . @prefix owl: . @prefix rdfg: . @prefix dce: . @prefix xsd: . @prefix rdfs: . @prefix prov: . @prefix npx: . sub:Head { this: a np:Nanopublication; np:hasAssertion sub:assertion; np:hasProvenance sub:provenance; np:hasPublicationInfo sub:pubinfo . } sub:assertion { a ; "assembler developer" . a ; "GigaScience journal" . a ; "programming" . a ; "Case Study" . a ; "reproducibility study" . a ; "href" . a , , ; pav:importedBy ; "Alejandra Gonzalez-Beltran"; ; "59628"^^xsd:integer; "https://api.rohub.org/api/ros/7b766778-d12f-45b3-bb71-ab4e95cbbc2c/crate/download/"; ; ; "2014-08-01 09:02:25.154000+00:00"; "2025-10-18 11:55:12.696752+00:00"; "2014-08-01 09:02:25.154000+00:00"; """The SOAPdenovo2 case study is a reproducibility study aimed at exploring how existing data models and workflow enactment engines can help assess, record and preserve scientific workflows and associated findings by reviewing a comparison between sequence assembly algorithm performance in the light of development of the SOAPdenovo2 de novo genome assembler. The case study was a joint effort by the GigaScience journal, the Investigation/Study/Assay (ISA), Nanopublication (Nanopub) and Research Object (RO) communities and SOAPdenovo2 de novo genome assembler developers. See source: http://isa-tools.github.io/soapdenovo2/"""; "application/ld+json"; , , , , ; "https://w3id.org/ro-id/7b766778-d12f-45b3-bb71-ab4e95cbbc2c"; ; "SOAPdenovo2 Case Study RO"; , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , ; rdfs:comment "Try clicking \"Show all\" to see all the annotations (e.g., creators, contributors) on the RO."; "Raul Palma, Jun Zhao, Marco Roos, Maria Susana Avila-Garcia, Mark Thompson, Peter Li, Philippe Rocca-Serra, et al. \"SOAPdenovo2 Case Study RO.\" ROHub. Aug 01 ,2014. https://w3id.org/ro-id/7b766778-d12f-45b3-bb71-ab4e95cbbc2c." . a , ; "isa-owl" . a , ; "nanopubs" . a , ; "Outputs" . a , ; "Workflows" . a , ; "ro-description" . a , ; "isa-tab" . a , ; "NanoStm" . a , ; , , ; "ro" . a ; dct:conformsTo ; . a ; "mathematics"; "1.3559322033898304"; "1.2" . a ; "information"; "4.436229205175601"; "9.6" . a ; "title"; "2.36550934757726"; "6.2" . a ; "software location"; "1.6577060931899643"; "3.7" . a ; "space sciences (general)"; "10.050736682322816"; "0.10134920477867126" . a ; "law"; "2.824858757062147"; "2.5" . a ; "sequence assembly algorithm"; "1.478494623655914"; "3.3" . a ; "software"; "4.845478824876001"; "12.7" . a ; "reproducibility study"; "5.913978494623656"; "13.2" . a ; "http"; "9.996184662342616"; "26.2" . a ; "source"; "2.1747424647081264"; "5.7" . a ; "investigation person role"; "0.8512544802867384"; "1.9" . a ; "SOAPdenovo2"; "22.96672828096118"; "49.699999999999996" . a ; "biology"; "3.0508474576271185"; "2.7" . a ; "geosciences"; "89.94926331767718"; "0.9070266783237457" . a ; "study publication status term accession number"; "0.9856630824372762"; "2.2" . a ; "The case study was a joint effort by the GigaScience journal, the Investigation/Study/Assay (ISA), Nanopublication (Nanopub) and Research Object (RO) communities and SOAPdenovo2 de novo genome assembler developers."; "17.517564402810304"; "37.4" . a ; "investigation title investigation"; "0.8960573476702509"; "2.0" . a ; "href"; "4.006104540251812"; "10.5" . a ; "genome assembler developer"; "1.5681003584229392"; "3.5" . a ; "repository"; "3.696857670979667"; "8.0" . a ; "assembler developer"; "12.32078853046595"; "27.5" . a ; "publication"; "2.4029574861367835"; "5.2" . a ; """Investigation Publication Status Term Source REF \"\""""; "2.154566744730679"; "4.6" . a ; "GitHub repository"; "39.112903225806456"; "87.3" . a ; "data producer"; "2.0332717190388174"; "4.4" . a ; "assembler"; "3.3733826247689462"; "7.3" . a ; "software"; "14.915254237288135"; "13.2" . a ; "Conclusions: Benchmark using the Assemblathon1 and GAGE datasets showed that SOAPdenovo2 greatly surpasses its predecessor SOAPdenovo and is competitive to other assemblers on both assembly length and accuracy."; "2.34192037470726"; "5.0" . a ; "investigation publication status term source ref"; "1.8369175627240142"; "4.1" . a ; "software"; "3.9741219963031424"; "8.6" . a ; "Medicine"; "Health/Health treatment/Medicine" . a ; "term accession number"; "1.388888888888889"; "3.1" . a ; "publication"; "6.409767264402898"; "16.799999999999997" . a ; "Genetics"; "Science and technology/Natural science/Biology/Genetics" . a ; "investigation"; "8.470049599389545"; "22.2" . a ; "http"; "11.367837338262477"; "24.6" . a ; "computer science"; "12.429378531073446"; "11.0" . a ; "Genetics"; "Science and technology/Natural science/Biology/Genetics" . a ; "Science and technology"; "Science and technology" . a ; "Language"; "Arts, culture and entertainment/Culture/Language" . a ; "Gigascience"; "2.2181146025878005"; "4.8" . a ; "case study RO."; "11.021505376344086"; "24.6" . a ; "Internet"; "4.858757062146893"; "4.3" . a ; "earth resources and remote sensing"; "89.94926331767718"; "0.9070266783237457" . a ; """Investigation Title \"Investigation\""""; "1.9203747072599529"; "4.1" . a ; "Tak"; . a ; "Oxford"; "1.8313620755436855"; "4.8" . a ; "RO."; "2.9112754158964878"; "6.3" . a ; "Library and museum"; "Arts, culture and entertainment/Culture/Library and museum" . a ; "anthropology"; "1.92090395480226"; "1.7" . a ; """For more information, please visit: http://isa-tools.github.io/soapdenovo2/"""; "9.36768149882904"; "20.0" . a ; "People"; "Human interest/People" . a ; "publishing"; "3.615819209039548"; "3.2" . a ; "software script"; "2.060931899641577"; "4.6" . a ; "computer programming"; "43.84180790960451"; "38.8" . a ; "investigation"; "4.990757855822551"; "10.8" . a ; "algorithm"; "2.937809996184662"; "7.7" . a ; "the 2008" . a ; "Shenzhen"; . a ; "Oxford"; . a ; "GitHub repository for the SOAPdenovo2 case study."; "27.02576112412178"; "57.7" . a ; "workflow enactment engine"; "7.168458781362007"; "16.0" . a ; "information technology"; "11.186440677966102"; "9.9" . a ; "Software"; "Economy, business and finance/Economic sector/Computing and information technology/Software" . a ; "earth sciences"; "39.34946938216159"; "0.7937774062156677" . a ; """SOAPdenovo2 ==========="""; "10.398126463700235"; "22.2" . a ; "environmental sciences"; "17.79124472514932"; "0.3588939905166626" . a ; "algorithm"; "2.5415896487985212"; "5.5" . a ; "earth sciences"; "42.859285892689094"; "0.8645792007446289" . a ; "See source: http://isa-tools.github.io/soapdenovo2/"; "6.182669789227166"; "13.2" . a ; "SOAPdenovo2 Case Study RO. The SOAPdenovo2 case study is a reproducibility study aimed at exploring how existing data models and workflow enactment engines can help assess, record and preserve scientific workflows and associated findings by reviewing a comparison between sequence assembly algorithm performance in the light of development of the SOAPdenovo2 de novo genome assembler."; "23.091334894613585"; "49.3" . a ; "University of Hong Kong"; "1.9408502772643252"; "4.2" . a ; "Interior"; . a ; "investigation identifier"; "0.8512544802867384"; "1.9" . a ; "oceanography"; "42.859285892689094"; "0.8645792007446289" . a ; "genome"; "3.6506469500924212"; "7.9" . a ; "Library and museum"; "Arts, culture and entertainment/Culture/Library and museum" . a ; "space sciences"; "10.050736682322816"; "0.10134920477867126" . a ; "case study"; "11.922365988909426"; "25.8" . a ; "case study"; "10.873712323540632"; "28.5" . a ; "genome"; "6.409767264402899"; "16.8" . a ; "GitHub"; "9.380776340110906"; "20.3" . a ; "geology"; "39.34946938216159"; "0.7937774062156677" . a ; "programmer"; "2.1365890881342997"; "5.6" . a ; "Chemistry"; "Science and technology/Natural science/Chemistry" . a ; "research center"; "1.9839755818389926"; "5.2" . a ; "information"; "4.311331552842426"; "11.3" . a ; "ecological applications"; "17.79124472514932"; "0.3588939905166626" . a ; "Tab"; "1.907668828691339"; "5.0" . a ; "Wireless technology"; "Economy, business and finance/Economic sector/Computing and information technology/Wireless technology" . a ; "Genetics"; "Science and technology/Natural science/Biology/Genetics" . a ; "communication protocol"; "2.212895841281953"; "5.8" . a ; "assembler"; "5.227012590614269"; "13.7" . a ; "repository for the SOAPdenovo2 case study"; "5.645161290322581"; "12.6" . a ; "workflow"; "1.7932086989698586"; "4.7" . a ; "investigation publication author list"; "0.8960573476702509"; "2.0" . a ; "Oxford University"; . a ; "investigation publication DOI"; "0.8512544802867384"; "1.9" . a ; "href"; "4.205175600739372"; "9.1" . a ; "status"; "1.9870609981515712"; "4.3" . a ; "term source ref"; "1.5681003584229392"; "3.5" . a ; "study"; "2.098435711560473"; "5.5" . a ; "Anthropology"; "Science and technology/Social sciences/Anthropology" . a ; "Raul Palma" . a ; "service-account-enrichment" . a ; "service-account-generation-service" . } sub:provenance { sub:assertion prov:wasDerivedFrom . } sub:pubinfo { this: a npx:RoCrateNanopub; dct:created "2025-11-11T16:45:10.171+01:00"^^xsd:dateTime; npx:introduces ; rdfs:label "SOAPdenovo2 Case Study RO" . sub:sig npx:hasAlgorithm "RSA"; npx:hasPublicKey "MIIBIjANBgkqhkiG9w0BAQEFAAOCAQ8AMIIBCgKCAQEA4pPaESKwmC6l37P86K6TNLq6yeQtc7m9CvcqauLs/1FC0viHvQnFBgxj0a+loPDv/Egwe6OqFpa0iW9Ypnyz9YPoh+pxbRXonbuMOb+8Ry9hXZ+TEKfWjhjVDGEaClwfRwglh2HI/xfV4CD9AgvDOEoZQiyta8a90PYwJ3G6e70oCHTn61+OWTkI9KRYHOYgg3btdy2Z7q/30PTFawb2ZT5aIfIJYobUYv2a7yhtcqWCHZeKv0bxGnRjTFNx1rscBMlLJSzvRtpQc1cCRVEPFZHo1adaXCI9tGvn4cxeNQ96y8dxkN1XhpaJairde+23MDzf42Oe97KG2HYzKiyVnQIDAQAB"; npx:hasSignature "hUjmlE0LydAbupn6sAnRouy41Qh7snVXuqMv1eD4C5TKdqnDSVrre+RVvI6mfS7kd+hVZv7/tb5ty6dQEvY+tP3UdenZGMANqt5I1YqUUJVQGVbusygwfsYAqMbAl/XIwYR/w+g5ToS9Fi37pBATvCUFR2Gp2rlMKWRpj0MdfhuQpsL/bPgoK/0ESiMlgqUgAz12m0fucmro3aSX2jkR+jOltKa6cxJ6CtiZ5sZf1BPV5XofWWZEWp8EfUQ9V55RDPr0yU4DvNwJCeL9t5LfRo1mR5I72QneW6Tj1lNh8e54GBkTgLo5h14CtyR1HbnVOKEUaI8QUTBYtnE2XR0+gg=="; npx:hasSignatureTarget this:; npx:signedBy . }