Matches in Nanopublications for { ?s ?p ?o <https://w3id.org/np/RAz9ihRB2SrMYmy_tjuAPvff_suzlYkckGoRdStH8KKbg/assertion>. }
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- dataset type Dataset assertion.
- param-bwa_mem-1 type Parameterization assertion.
- param-bwa_mem-2 type Parameterization assertion.
- param-bwa_mem-3 type Parameterization assertion.
- param-bwa_mem-4 type Parameterization assertion.
- param-samtools_index-1 type Parameterization assertion.
- rule-all type WorkflowRule assertion.
- rule-bcftools_call type WorkflowRule assertion.
- rule-bwa_mem type WorkflowRule assertion.
- rule-plot_positions type WorkflowRule assertion.
- rule-plot_quals type WorkflowRule assertion.
- rule-samtools_index type WorkflowRule assertion.
- workflowrun type WorkflowRun assertion.
- workflow-configuration label "from workflow configuration" assertion.
- config-1 identifier "config/config.yaml" assertion.
- config-1 text "samples: A: data/samples/A.fastq B: data/samples/B.fastq " assertion.
- dataset describesWorkflow RAOBjU_aTRgW5zb2MFGvZPAXBZegQRzVoUU-aSGQFpxh4 assertion.
- workflowrun description "" assertion.
- dataset generatedAt "2026-03-17T19:26:28.393653Z" assertion.
- rule-bcftools_call hasOutput "calls/all.vcf" assertion.
- rule-plot_positions hasOutput "calls/positions.png" assertion.
- rule-plot_quals hasOutput "calls/quals.png" assertion.
- rule-bwa_mem hasOutput "sorted_reads/A.bam" assertion.
- rule-samtools_index hasOutput "sorted_reads/A.bam.bai" assertion.
- rule-bwa_mem hasOutput "sorted_reads/B.bam" assertion.
- rule-samtools_index hasOutput "sorted_reads/B.bam.bai" assertion.
- rule-bwa_mem hasOutput "sorted_reads/{sample}.bam" assertion.
- rule-samtools_index hasOutput "sorted_reads/{sample}.bam.bai" assertion.
- rule-bwa_mem hasParameterization param-bwa_mem-1 assertion.
- rule-bwa_mem hasParameterization param-bwa_mem-2 assertion.
- rule-bwa_mem hasParameterization param-bwa_mem-3 assertion.
- rule-bwa_mem hasParameterization param-bwa_mem-4 assertion.
- rule-samtools_index hasParameterization param-samtools_index-1 assertion.
- workflowrun hasRule rule-all assertion.
- workflowrun hasRule rule-bcftools_call assertion.
- workflowrun hasRule rule-bwa_mem assertion.
- workflowrun hasRule rule-plot_positions assertion.
- workflowrun hasRule rule-plot_quals assertion.
- workflowrun hasRule rule-samtools_index assertion.
- rule-all hasSoftwarePackage "all" assertion.
- rule-bcftools_call hasSoftwarePackage "shell" assertion.
- rule-bcftools_call hasSoftwarePackage "envs/bcftools.yml" assertion.
- rule-bwa_mem hasSoftwarePackage "envs/bwa.yml" assertion.
- rule-plot_positions hasSoftwarePackage "envs/matplotlib.yml" assertion.
- rule-plot_quals hasSoftwarePackage "envs/matplotlib.yml" assertion.
- rule-samtools_index hasSoftwarePackage "envs/samtools.yml" assertion.
- rule-plot_positions hasSoftwarePackage "scripts/plot-positions.py" assertion.
- rule-plot_quals hasSoftwarePackage "scripts/plot-quals.py" assertion.
- rule-samtools_index hasSoftwarePackage "v5.7.0/bio/samtools/index" assertion.
- rule-bwa_mem hasSoftwarePackage "v8.1.1/bio/bwa/mem" assertion.
- dataset hasWorkflowRun workflowrun assertion.
- param-bwa_mem-1 parameterIndex "1" assertion.
- param-samtools_index-1 parameterIndex "1" assertion.
- param-bwa_mem-2 parameterIndex "2" assertion.
- param-bwa_mem-3 parameterIndex "3" assertion.
- param-bwa_mem-4 parameterIndex "4" assertion.
- param-bwa_mem-4 parameterValue "" assertion.
- param-samtools_index-1 parameterValue "" assertion.
- param-bwa_mem-3 parameterValue "coordinate" assertion.
- param-bwa_mem-1 parameterValue "-R '@RG\tID:{sample}\tSM:{sample}'" assertion.
- param-bwa_mem-2 parameterValue "samtools" assertion.
- rule-samtools_index parametersJSON "[""]" assertion.
- rule-bwa_mem parametersJSON "["-R '@RG\\tID:{sample}\\tSM:{sample}'", "samtools", "coordinate", ""]" assertion.
- rule-all ruleName "all" assertion.
- rule-bcftools_call ruleName "bcftools_call" assertion.
- rule-bwa_mem ruleName "bwa_mem" assertion.
- rule-plot_positions ruleName "plot_positions" assertion.
- rule-plot_quals ruleName "plot_quals" assertion.
- rule-samtools_index ruleName "samtools_index" assertion.
- workflow-configuration hasConfigurationFile config-1 assertion.
- workflowrun hasConfigurationSection workflow-configuration assertion.
- rule-all hasInput "calls/all.vcf" assertion.
- rule-all hasInput "calls/positions.png" assertion.
- rule-all hasInput "calls/quals.png" assertion.
