Ian YF Chang's repositories
containers
con
DeepNovo
Protein Identification with Deep Learning
DeepNovo-DIA
De novo peptide sequencing for DDA and DIA by deep learning
pdx_exomeseq
Pipeline analysis for whole exome sequencing of pancreatic cancer PDX models
seurat-data
Dataset distribution for Seurat
seurat-wrappers
Community-provided extensions to Seurat
single-cell-rcc-pipeline
Data files and code for analysis of single-cell ccRCC data for the manuscript "Tumor-Specific Cell Populations in Clear Cell Renal Carcinoma Associated with Clinical Outcome Identified Using Single-Cell Protein Activity Inference." Includes code for VIPER protein activity inference pipeline
spacexr
Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics
SVetect
A tool for identifying and classifying structural rearrangements and chromoplexy from high throughput sequencing data.
TRUP
Tumor-specimen suited RNA-seq Unified Pipeline