Starred repositories
A manually curated database of literature-supported ligand-receptor interactions in human and mouse
A centralized location for storing curated data from cBioPortal
CancerFoundation: A single-cell RNA sequencing foundation model to decipher drug resistance in cancer
scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.
Unified access to several second-generation deconvolution methods
A unified interface to spatial transcriptomics deconvolution tools
An extremely fast Python package and project manager, written in Rust.
Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot
ResNet50 trained on U-CAN colorectal cancer for CRPS classifier
Shiny apps for NGS etc based on reusable components created using Shiny modules
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 prβ¦
utilities for indexing and sequence extraction from FASTA files
An R implementation of the Gene Frequency - Inverse Cell Frequency method for single cell data normalization
RNA-seq workflow using STAR and DESeq2
scRNAseq analysis notes from Ming Tang
A tool to find sequencing data and metadata from public databases.
π π π―π¨π₯π effortlessly translates differential expression datasets and RNAseq data into informative volcano plots. Highlight genes of interest with unprecedented ease. With just a single line of code,β¦
Contains the code from "Learning the Sequence Determinants of Alternative Splicing from Millions of Random Sequences"
Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.
Biological sequence analysis for the modern age.
Correlation-Based Feature Selection for Single-Cell RNA Sequencing Data