A Genomic Foundation Model

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DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal and tumor-only sequencing data.

ATAC-seq peak-calling and QC analysis pipeline

STAR-Fusion codebase

Snakemake pipeline from Blog.

Implementing a ChatGPT-like LLM in PyTorch from scratch, step by step

明医 (MING)：中文医疗问诊大模型

✔️（持续更新）李沐 【动手学深度学习v2 PyTorch版】课程学习笔记，更正了AccumulateMore笔记的部分错误，从更加初级的角度做了部分内容补充

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

An analysis pipeline using open-source tools to process bulk ATAC-seq and RNA-seq data, including gene regulatory network construction

An R package for classification of immune subtypes, in cancer, using gene expression data.

ESTIMATE tumor infiltration, the tidy way

A python script to calculate the HLA Evolutionary Divergence (HED) Score.

An open source implementation of OpenAI's ChatGPT Code interpreter

pytorch handbook是一本开源的书籍，目标是帮助那些希望和使用PyTorch进行深度学习开发和研究的朋友快速入门，其中包含的Pytorch教程全部通过测试保证可以成功运行

A full set of scripts for professional quality analysis of multiple-condition single-cell RNAseq data.

A simple Python wrapper for Slurm with flexibility in mind.

Unix, R and python tools for genomics and data science

Codebook from my GWAS cookbook

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

Haplotype VCF comparison tools

Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.