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neoadjuvant-therapy-response-predictor

ngs-analysis

二代测序数据分析

ngtas_pipeline

Computational pipeline to analyse Next Generation Targeted Amplicon Sequence data

numpy-100

100 numpy exercises (with solutions)

p53_fitness_tradeoff

Repository for the paper: "A model of mutant p53 fitness defines fundamental trade-offs between oncogenic potential and immunogenicity of tumor-driver mutations".

pancreas-targeted_pharmacology

pancreatic-endocrinogenesis

This repository contains all scripts to reproduce the results from:

phage-annotation-workshop

Phage Annotation Workshop 2021

phd2018

Repository for PhD Course 2018: Systems Biology of Human Metabolism and Gut Microbiome

pymultiomics

Python toolbox for multi-omics data mapping and analysis

python3_stepbystep

A step-by-step 10-day Python3 tutorial especially for bioinformatician

rnaseq-workflow

A repository for setting up a RNAseq workflow

robustsinglecell

Robust single cell clustering and comparison of population compositions across tissues and experimental models via similarity analysis.

scanpy-demo-czbiohub

single-cell scanpy teaching

scft-paper

Z Hu et al. The repertoire of serous ovarian cancer non-genetic heterogeneity revealed by single-cell sequencing of normal fallopian tube epithelial cells. Cancer Cell (2020). Volume 37, Issue 2, P226-242

scifig_plot_examples_r

Scientific publication figure plotting examples with R

scirpy

A scanpy extension to analyse single-cell TCR data.

sckidneytumors

Code for "Single cell transcriptomes from human kidneys reveal the cellular identity of renal tumours"

scratch-codes

Codes used in the microbiome and proteomics analysis

scrna

scrna-seq_notes

A list of scRNA-seq analysis tools

scrnaseq-bladdercancer

Collaboration with David Mulholland at Mount Sinai for invasive Bladder Cancer

sepsis_signature

sgz

single-cell-metabolic-landscape

Pipeline for exploring metebolic heterogeneity at single-cell resolution

single-cell-papers-with-code

Papers with code for single cell related papers

single-cell-rna-sequencing-of-human-kidney

R-code used for single-cell RNA-Seq analysis of kidney data.

single-cell-tutorial

Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

single_cell_paper

collect the superb single cell RNA-seq paper

singlecell_il13

Code for the paper, "Single cell and population transcriptomics reveal pan-epithelial remodeling in type 2-high asthma"