Bioinformatician (Spatial & Single-Cell)

Tasks

• Apply pseudobulk analysis
• Assess compositional analysis
• Build production bioinformatics pipelines
• Compute spatial autocorrelation
• Correct spillover effects
• Create protein RNA joint embeddings
• Deconvolve spatial spots
• Design spatial and single cell statistics
• Develop reusable workflow templates for agent execution
• Fit mixed effects models
• Ingest single cell and spatial data
• Integrate and annotate multi modality data
• Perform hierarchical cell type annotation
• Perform quality control and normalization
• Run ADT normalization
• Run differential analysis
• Sanity check outputs for batch effects and artifacts
• Segment spatial images
• Use multiple testing correction

Perks/Benefits

• Equity participation
• Flexible arrangement
• High autonomy
• Remote work

Skills/Tech-stack

ADT Normalization | Anndata | Cell-type annotation | Compositional Data Analysis | Data Analysis | Differential Analysis | Mixed-effects | Mixed-effects models | Multiple Testing Correction | Multiple testing | Muon | Protein RNA Joint Embedding | Pseudobulk | Python | Scanpy | Segmentation | Spatial Autocorrelation | Spatial transcriptomics | Spillover Correction | Spot Deconvolution | Squidpy | Type annotation