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biocode

Bioinformatics code libraries and scripts

blood_tumor_code

All the code for the Blood/Tumor project.

cpa

The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell level. CPA performs OOD predictions of unseen combinations of drugs, learns interpretable embeddings, estimates dose-response curves, and provides uncertainty estimates.

dnbelab_c_series_ht_scrna-analysis-software

An open source and flexible pipeline to analysis high-throughput DNBelab C Series single-cell RNA datasets

endo.scrnseq

geo

hierarchy

immucc

Cell-Centric View of Tissue Transcriptome Measuring Cellular Compositions of Immune Microenvironment From Mouse RNA-Seq Data.

immune-repertoire

krakentools

KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files

mtsc

A multitask deep metric learning-based framework for single cell assignment based on multiple references

multi-omic-urothelial-anti-pdl1

Contribution of systemic and somatic factors to clinical response and resistance in urothelial cancer: an exploratory multi-omic analysis

scte

superfolder-covid-mrna-vaccines

SuperFolder COVID mRNA vaccines, stabilized for in vitro storage and shipping

tcga_example

twosamplemr

R package for performing 2-sample MR using MR-Base database