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Data toolkits for processing NMR, MALDI MSI, MALDI single cell, Raman Spectroscopy, LC-MS and GC-MS raw data, chemoinformatics data analysis and data visualization.
Low level infrastructure to handle MS spectra
This is the git repository matching the Bioconductor package xcms: LC/MS and GC/MS Data Analysis
Universal workbench incorporating msdial, msfinder, and mrmprobs
Spatial Transcriptomics Capture Location Deconvolution
Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics
📊 A universal enrichment tool for interpreting omics data
R package for detecting doublets in single-cell RNA sequencing data
Unsupervised Inference of Developmental Directions for Single Cells
Functions for identifying and characterizing continuous developmental trajectories in single-cell data.
Explainable Machine Learning in Survival Analysis
A computational method to rank and infer drug-responsive cell population towards in-silico drug perturbation using a target-perturbed gene regulatory network (tpGRN) for single-cell transcriptomic …
An R package for drug response prediction and drug-gene association prediction.
Single Cell Oriented Reconstruction of PANDA-based Individually Optimized Networks
A number of functions were generated to perform pan-cancer DEG analysis, correlation analysis between gene expression and TMB, MSI, TIME, and promoter methylation. Methods for visualization were pr…
IOBR is an R package to perform comprehensive analysis of tumor microenvironment and signatures for immuno-oncology.
The integration of single cell rank-based gene set enrichment analysis