II.
LibraryProcess overview
Reference · livelib-process:bioinformatics--tumor-molecular-profiling
tumor-molecular-profiling overview
Tumor Molecular Profiling - Comprehensive molecular characterization of tumors for precision oncology including somatic mutation calling, copy number analysis, fusion detection, and biomarker assessment.
Attributes
displayName
tumor-molecular-profiling
description
Tumor Molecular Profiling - Comprehensive molecular characterization of tumors for precision
oncology including somatic mutation calling, copy number analysis, fusion detection, and biomarker assessment.
libraryPath
library/specializations/domains/science/bioinformatics/tumor-molecular-profiling.js
specialization
bioinformatics
references
- - GATK Somatic: https://gatk.broadinstitute.org/hc/en-us/articles/360035894731-Somatic-short-variant-discovery-SNVs-Indels- - OncoKB: https://www.oncokb.org/ - COSMIC: https://cancer.sanger.ac.uk/cosmic - CIViC: https://civicdb.org/
example
const result = await orchestrate('specializations/domains/science/bioinformatics/tumor-molecular-profiling', {
projectName: 'Oncology Patient Case',
tumorSample: { id: 'TUMOR001', bam: '/data/tumor.bam' },
normalSample: { id: 'NORMAL001', bam: '/data/normal.bam' },
panelType: 'WES'
});
usesAgents
- general-purpose
Outgoing edges
lib_applies_to_domain1
- domain:bioinformatics·DomainBioinformatics
lib_belongs_to_specialization2
- specialization:biomedical-informatics·SpecializationBiomedical Informatics
- specialization:bioinformatics·SpecializationBioinformatics
lib_implements_workflow1
- workflow:experiment-design·WorkflowExperiment Design
lib_involves_role2
- role:research-engineer·RoleResearch Engineer
- role:biomedical-engineer·RoleBiomedical Engineer
lib_requires_skill_area3
- skill-area:data-analysis·SkillAreaData Analysis
- skill-area:statistical-analysis·SkillAreaStatistical Analysis
- skill-area:python-data-pipelines·SkillAreaPython Data Pipelines
Incoming edges
None.