R package for the analysis of OK-Seq data to study DNA replication fork directionality: from count matrices, RFD calculation to inititation/termination zone calling.

Ini-seq 2 origin caller

Use ChatGPT to summarize the arXiv papers. 全流程加速科研，利用chatgpt进行论文全文总结+专业翻译+润色+审稿+审稿回复

为GPT/GLM等LLM大语言模型提供实用化交互接口，特别优化论文阅读/润色/写作体验，模块化设计，支持自定义快捷按钮&函数插件，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chatglm3等本地模型。接入通义千问, deepseekcoder, 讯飞星火, 文心一言, llama2, rwkv, claude2, m…

Color blindness friendly visualization of single-cell and bulk RNA-sequencing data

Reproducibility code for the manuscript: 'Inferring and perturbing cell fate regulomes in human cerebral organoids

Reusable scripts and functions archive for the paper "Organoid single-cell genomic atlas uncovers human-specific features of brain development" (https://www.nature.com/articles/s41586-019-1654-9)

A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.

A simple gene co-expression analyses workflow powered by tidyverse and graph analyses

Analysis Pipeline for Single Cell ATAC-seq

Spatial mapping of cell types by integration of transcriptomics data

A list of scRNA-seq analysis tools

Identification of candidate cancer mutations based on edge perturbation.

Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space

An R Package for Geneset Enrichment Workflows

Main repository for Drews et al. (Nature, 2022)

DOCUMENTATION:

R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data

🎉 A clean and delicate Jekyll theme. Jekyll博客主题

Workflow to run bam-qc-metrics (https://github.com/oicr-gsi/bam-qc-metrics)

Code for reproducing "Exploring genetic interaction manifolds constructed from rich single-cell phenotypes"

NIH BYOB Presentation Materials

Integrating LASSO and bootstrapping algorithm to find best prognostic or predictive biomarkers

Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal