cll7658's repositories
paper-code
Repository containing the R-code used in analyses for publications.
AtacWorks
Deep learning based processing of Atac-seq data
bc_osc_jupyter
Batch Connect - OSC Jupyter Notebook Server
BrCa_cell_atlas
Data processing and analysis related code associated with the study "A single-cell and spatially resolved atlas of human breast cancers".
BS831
Course Materials for Genomics Data Mining
chroma
A generative model for programmable protein design
ColabFold
Making Protein folding accessible to all!
docs.hpc.sjtu.edu.cn
SJTU HPC 用户文档站点
EPIC
Repository for the R package EPIC, to Estimate the Proportion of Immune and Cancer cells from bulk gene expression data.
gpt_academic
为ChatGPT/GLM提供图形交互界面，特别优化论文阅读润色体验，模块化设计支持自定义快捷按钮&函数插件，支持代码块表格显示，Tex公式双显示，支持Python和C++等项目剖析&自译解功能，PDF/LaTex论文翻译&总结功能，支持并行问询多种LLM模型，支持清华chatglm等本地模型。兼容复旦MOSS, llama, rwkv, 盘古, newbing, claude等
hpc-toolset-tutorial
Tutorial for installing Open XDMoD, OnDemand, & ColdFront
luca
Single-cell Lung Cancer Atlas with 1.2M cells
rapids-single-cell-examples
Examples of single-cell genomic analysis accelerated with RAPIDS
infercnvNGCHM
inferCNV interface to using NGCHM next generation heat maps
IOBR
IOBR is an R package to perform comprehensive analysis of tumor microenvironment and signatures for immuno-oncology.
MSofTimiGP
This includes all codes used in TimiGP manuscript
NCOMMS_NSCLC_scFibs
Code Associated with the Nature Communications Publication entitled "Single-cell analysis reveals prognostic fibroblast subpopulations linked to molecular and immunological subtypes of lung cancer"
NGCHMR
An R library for creating Next-Generation Clustered Heat Maps (NG-CHM)
ood-compose
Docker compose to bring up Open OnDemand with SLURM, Centos 7
paper-code1
Illustrative R-code used in publications.
scMetabolism
Quantifying metabolism activity at the single-cell resolution
SCP
SCP provides a comprehensive set of tools for single cell data processing and downstream analysis.
seurat-data
Dataset distribution for Seurat
seurat-wrappers
Community-provided extensions to Seurat
simplifyEnrichment
Simplify functional enrichment results
single-cell-papers-with-code
Papers with code for single cell related papers
singlet
Single-cell analysis with non-negative matrix factorization
TimiGP20231223
An R package to infer cell-cell interactions and clinical values in tumor immune microenvironment through gene pairs.
TOmicsVis
Transcriptomics Visualization R package.
velocyto.R
RNA velocity estimation in R