II.
LibraryProcess overview
Reference · livelib-process:bioinformatics--scrnaseq-analysis
scrnaseq-analysis overview
Single-Cell RNA-seq Analysis - End-to-end analysis pipeline for single-cell RNA sequencing data including quality control, normalization, clustering, cell type annotation, and trajectory analysis.
Attributes
displayName
scrnaseq-analysis
description
Single-Cell RNA-seq Analysis - End-to-end analysis pipeline for single-cell RNA
sequencing data including quality control, normalization, clustering, cell type annotation,
and trajectory analysis.
libraryPath
library/specializations/domains/science/bioinformatics/scrnaseq-analysis.js
specialization
bioinformatics
references
- - Scanpy: https://scanpy.readthedocs.io/ - Seurat: https://satijalab.org/seurat/ - scVI: https://docs.scvi-tools.org/ - CellTypist: https://www.celltypist.org/ - Monocle3: https://cole-trapnell-lab.github.io/monocle3/
example
const result = await orchestrate('specializations/domains/science/bioinformatics/scrnaseq-analysis', {
projectName: 'PBMC Single-Cell Atlas',
samples: [{ id: 'sample1', path: '/data/sample1' }],
technology: '10X_Chromium',
expectedCellTypes: ['T cells', 'B cells', 'Monocytes', 'NK cells']
});
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.