Nanopublications

@prefix dcterms: <http://purl.org/dc/terms/> .
@prefix np: <http://www.nanopub.org/nschema#> .
@prefix npx: <http://purl.org/nanopub/x/> .
@prefix ntemplate: <https://w3id.org/np/o/ntemplate/> .
@prefix orcid: <https://orcid.org/> .
@prefix prov: <http://www.w3.org/ns/prov#> .
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix schema: <https://schema.org/> .
@prefix sub: <https://w3id.org/np/RAOT7z3RA0XYlHIikne8rfUUYZrtHyrzXBD1HpI_GvcRk/> .
@prefix this: <https://w3id.org/np/RAOT7z3RA0XYlHIikne8rfUUYZrtHyrzXBD1HpI_GvcRk> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .

sub:Head {
  this: np:hasAssertion sub:assertion ;
    np:hasProvenance sub:provenance ;
    np:hasPublicationInfo sub:pubinfo ;
    a np:Nanopublication .
}

sub:assertion {
  <http://edamontology.org/format_1929> rdfs:label "FASTA" .
  <http://edamontology.org/format_1930> rdfs:label "FASTQ" .
  <http://edamontology.org/format_1934> rdfs:label "fitch program" .
  <http://edamontology.org/format_1935> rdfs:label "GCG" .
  <http://edamontology.org/format_1936> rdfs:label "GenBank format" .
  <http://edamontology.org/format_1937> rdfs:label "genpept" .
  <http://edamontology.org/format_1938> rdfs:label "GFF2-seq" .
  <http://edamontology.org/format_1939> rdfs:label "GFF3-seq" .
  <http://edamontology.org/format_1940> rdfs:label "giFASTA format" .
  <http://edamontology.org/format_1950> rdfs:label "pdbatom" .
  dcterms:creator rdfs:label "created by" .
  dcterms:description rdfs:label "has description" .
  dcterms:format rdfs:label "needs or produces data format" .
  dcterms:license rdfs:label "has license" .
  dcterms:title rdfs:label "has title" .
  prov:wasDerivedFrom rdfs:label "improves upon method" .
  <https://creativecommons.org/licenses/by/4.0/> rdfs:label "CC-BY-4.0" .
  schema:applicationCategory rdfs:label "serves purpose" .
  schema:applicationSubCategory rdfs:label "applies to domains" .
  schema:codeRepository rdfs:label "has source repository" .
  schema:keywords rdfs:label "has keywords" .
  schema:learningResourceType rdfs:label "uses computational approach" .
  schema:url rdfs:label "is accessible via" .
  <https://spdx.org/licenses/Apache-2.0.html> rdfs:label "Apache 2.0" .
  <https://spdx.org/licenses/BSD-3-Clause.html> rdfs:label "BSD 3 Clause" .
  <https://spdx.org/licenses/GPL-3.0.html> rdfs:label "GPL 3.0" .
  <https://spdx.org/licenses/MIT.html> rdfs:label "MIT" .
  sub:applicable-domains a ntemplate:GuidedChoicePlaceholder ;
    rdfs:label "applicable research domains" ;
    ntemplate:possibleValuesFromApi "https://www.wikidata.org/w/api.php?action=wbsearchentities&language=en&format=json&limit=5&search=" .
  sub:application-category a ntemplate:GuidedChoicePlaceholder ;
    rdfs:label "primary computational purpose" ;
    ntemplate:possibleValuesFromApi "https://www.wikidata.org/w/api.php?action=wbsearchentities&language=en&format=json&limit=5&search=" .
  sub:assertion dcterms:description "Template for describing a computational workflow implemented for and supported by a Workflow Management System" ;
    a ntemplate:AssertionTemplate ;
    rdfs:label "Computational Workflow" ;
    ntemplate:hasNanopubLabelPattern "Method: ${title}" ;
    ntemplate:hasStatement sub:st01 , sub:st02 , sub:st03 , sub:st04 , sub:st05 , sub:st06 , sub:st07 , sub:st08 , sub:st09 , sub:st10 , sub:st11 , sub:st12 , sub:st13 , sub:st14 ;
    ntemplate:hasTag "Computational Workflow" .
  sub:base-method a ntemplate:UriPlaceholder ;
    rdfs:label "method this improves upon (DOI or URI)" .
  sub:computational-approach a ntemplate:GuidedChoicePlaceholder ;
    rdfs:label "computational approach used" ;
    ntemplate:possibleValuesFromApi "https://www.wikidata.org/w/api.php?action=wbsearchentities&language=en&format=json&limit=5&search=" .
  sub:computational-workflow a ntemplate:UriPlaceholder ;
    rdfs:label "URI of the workflow repository" .
  sub:creator a ntemplate:UriPlaceholder ;
    rdfs:label "ORCID of creator" ;
    ntemplate:hasPrefix "https://orcid.org/" ;
    ntemplate:hasPrefixLabel "ORCID (just the 16-digit ID)" ;
    ntemplate:hasRegex "0000-\\d{4}-\\d{4}-\\d{4}" .
  sub:description a ntemplate:LongLiteralPlaceholder ;
    rdfs:label "description of what the method does" ;
    ntemplate:hasRegex "[\\s\\S]{10,1000}" .
  sub:doi a ntemplate:UriPlaceholder ;
    rdfs:label "DOI URL" ;
    ntemplate:hasPrefix "https://doi.org/" ;
    ntemplate:hasPrefixLabel "DOI (starting with '10.')" ;
    ntemplate:hasRegex "10.(\\d)+/(\\S)+" .
  sub:github-repo a ntemplate:UriPlaceholder ;
    rdfs:label "GitHub repository URL" .
  sub:input-format a ntemplate:RestrictedChoicePlaceholder ;
    rdfs:label "expected input data format" ;
    ntemplate:hasPrefix "input:" ;
    ntemplate:hasPrefixLabel "Input:" ;
    ntemplate:possibleValue <http://edamontology.org/format_1929> , <http://edamontology.org/format_1930> , <http://edamontology.org/format_1934> , <http://edamontology.org/format_1935> , <http://edamontology.org/format_1936> , <http://edamontology.org/format_1937> , <http://edamontology.org/format_1938> , <http://edamontology.org/format_1939> , <http://edamontology.org/format_1940> , <http://edamontology.org/format_1950> .
  sub:keywords a ntemplate:GuidedChoicePlaceholder ;
    rdfs:label "research keywords from Wikidata" ;
    ntemplate:possibleValuesFromApi "https://www.wikidata.org/w/api.php?action=wbsearchentities&language=en&format=json&limit=5&search=" .
  sub:license a ntemplate:RestrictedChoicePlaceholder ;
    rdfs:label "software license" ;
    ntemplate:possibleValue <https://creativecommons.org/licenses/by/4.0/> , <https://spdx.org/licenses/Apache-2.0.html> , <https://spdx.org/licenses/BSD-3-Clause.html> , <https://spdx.org/licenses/GPL-3.0.html> , <https://spdx.org/licenses/MIT.html> .
  sub:st01 rdf:object schema:SoftwareSourceCode ;
    rdf:predicate rdf:type ;
    rdf:subject sub:computational-workflow .
  sub:st02 rdf:object sub:title ;
    rdf:predicate dcterms:title ;
    rdf:subject sub:computational-workflow .
  sub:st03 rdf:object sub:description ;
    rdf:predicate dcterms:description ;
    rdf:subject sub:computational-workflow .
  sub:st04 rdf:object sub:doi ;
    rdf:predicate schema:url ;
    rdf:subject sub:computational-workflow .
  sub:st05 rdf:object sub:github-repo ;
    rdf:predicate schema:codeRepository ;
    rdf:subject sub:computational-workflow ;
    a ntemplate:RepeatableStatement .
  sub:st06 rdf:object sub:creator ;
    rdf:predicate dcterms:creator ;
    rdf:subject sub:computational-workflow ;
    a ntemplate:RepeatableStatement .
  sub:st07 rdf:object sub:workflow-management-system ;
    rdf:predicate <https://www.wikidata.org/wiki/Q2808660> ;
    rdf:subject sub:computational-workflow .
  sub:st08 rdf:object sub:application-category ;
    rdf:predicate schema:applicationCategory ;
    rdf:subject sub:computational-workflow .
  sub:st09 rdf:object sub:keywords ;
    rdf:predicate schema:keywords ;
    rdf:subject sub:computational-workflow ;
    a ntemplate:OptionalStatement , ntemplate:RepeatableStatement .
  sub:st10 rdf:object sub:input-format ;
    rdf:predicate dcterms:format ;
    rdf:subject sub:computational-workflow ;
    a ntemplate:OptionalStatement , ntemplate:RepeatableStatement .
  sub:st11 rdf:object sub:license ;
    rdf:predicate dcterms:license ;
    rdf:subject sub:computational-workflow ;
    a ntemplate:OptionalStatement , ntemplate:RepeatableStatement .
  sub:st12 rdf:object sub:base-method ;
    rdf:predicate prov:wasDerivedFrom ;
    rdf:subject sub:computational-workflow ;
    a ntemplate:OptionalStatement .
  sub:st13 rdf:object sub:computational-approach ;
    rdf:predicate schema:learningResourceType ;
    rdf:subject sub:computational-workflow ;
    a ntemplate:OptionalStatement , ntemplate:RepeatableStatement .
  sub:st14 rdf:object sub:applicable-domains ;
    rdf:predicate schema:applicationSubCategory ;
    rdf:subject sub:computational-workflow ;
    a ntemplate:OptionalStatement , ntemplate:RepeatableStatement .
  sub:title a ntemplate:LiteralPlaceholder ;
    rdfs:label "title of the Workflow" ;
    ntemplate:hasRegex "[\\s\\S]{5,200}" .
  sub:workflow-management-system a ntemplate:RestrictedChoicePlaceholder ;
    rdfs:label "Workflow Management System" , "uses workflow management system" ;
    ntemplate:possibleValue <https://www.wikidata.org/wiki/Q106286298> , <https://www.wikidata.org/wiki/Q2808660> , <https://www.wikidata.org/wiki/Q51293717> , <https://www.wikidata.org/wiki/Q5518091> , <https://www.wikidata.org/wiki/Q56291707> .
  <https://www.wikidata.org/wiki/Q106286298> rdfs:label "Snakemake" .
  <https://www.wikidata.org/wiki/Q2808660> rdfs:label "Workflow Management System" .
  <https://www.wikidata.org/wiki/Q51293717> rdfs:label "Nextflow" .
  <https://www.wikidata.org/wiki/Q5518091> rdfs:label "Galaxy" .
  <https://www.wikidata.org/wiki/Q56291707> rdfs:label "CWL" .
}

sub:provenance {
sub:assertion prov:generatedAtTime "2026-03-01T20:03:06.980766"^^xsd:dateTime ;
prov:wasAttributedTo orcid:0000-0003-2408-7588 .
}

sub:pubinfo {
  this: prov:generatedAtTime "2026-03-01T20:03:06.980766"^^xsd:dateTime ;
    prov:wasAttributedTo orcid:0000-0003-2408-7588 .
  sub:sig npx:hasAlgorithm "RSA" ;
    npx:hasPublicKey "MIIBIjANBgkqhkiG9w0BAQEFAAOCAQ8AMIIBCgKCAQEAkOFUnnRCp/k9/0ugvx8zQJ+Qc675W1Ug6F839+xvJ2QsSBu4iOJ1O2kJCmb3tALp3gJOt8sffRot3VrfY1hbgXxL7BVtDsfHHmXVff4YCeg5Ycdn5cDpLawDpAdYwMhK0LwIkZ3fwH9/o9JniYKXLV/jpF9bMKyiw/6tqlCHaMW1r8gzZzoxVIAakwvlABoY0iNoToLTlBRXEI4mLUNjDMnMwQgfh1KXMxMruNjW3wJyeDEIfa2ooAt0E4CRM9pkrEb37NzD9Jz8aSUFFY6BvIxF4ixK7rm6IUDvQ76LqXkEmgSeRv1kw7gnCe9wV/wHd0ZeW4heoBXmLHX3MvHfjwIDAQAB" ;
    npx:hasSignature "bHINI7ZPhlzSInHEaYwnbUfyIHIRqVlZeps3estAum1JQyRxE8kkzVfB0MMfR4WjQOgsTlGiA0dQ5r8YB3IMgorfTDrYA0jRMz1sM4TRO4mRLzyKFm5DiAaVuRqf1ihcjKatcpnatDmqPTMJ5rapZrlmttIHS56GkikxbEaXwCROnv0pOL4W5pYIFDqcq3/rckMz0x0NmaLNzciWCxuZGcjINoZjPj8qveeqQrLxcdeiTifRExcfmpEzM1nkjSHix66TA4NZmTT78bwWE8XokkWx1NIZS3Y4P4jrnAUDnDXePxLM+z1u11PvdzmWNZdDc9rFZ3QmVymy/o/TNYSe4A==" ;
    npx:hasSignatureTarget this: ;
    npx:signedBy orcid:0000-0003-2408-7588 .
}