Name: Cancer Systems Immunology Lab
Type: Organization
Bio: At Ludwig Cancer Research Lausanne and Department of Oncology, University of Lausanne & Swiss Institute of Bioinformatics
Twitter: carmonation
Location: Lausanne, Switzerland
Blog: https://agora-cancer.ch/laboratory/carmona-lab
Cancer Systems Immunology Lab's Projects
This is the first exercise for the bioinformatics scRNA-seq course
Methods to discover gene programs on single-cell data
Demos and applications for NMF on single-cell data
High-resolution Tumor Micro-Environment cell type classification and compositional analysis for scRNA-seq
Repository of case studies using HiTME
Projection example using a human CD8 TIL reference map.
Interpretation of cell states using reference single-cell maps
A repository for testing the functionalities of ProjecTILs
A repository of case studies using ProjecTILs
marker-based purification of cell types from single-cell RNA-seq datasets
Cell type gating models for scGate
Snakemake pipeline that works with the scIB package to benchmark data integration methods.
Snakemake pipeline that works with the scIB package to benchmark data integration methods.
R implementation of integration metrics for single-cell data
A toolkit for single-cell immune profiling
Community-provided extensions to Seurat
This version of rocker/shiny has additional packages to enable iSEE Explorer support
A database of useful gene signatures for single-cell analysis
R package for semi-supervised single-cell data integration
Integrating scRNA-seq data using STACAS