callmeexin

callmeexin's Stars

• LucaOne/LucaProt

  LucaProt: A novel deep learning framework that incorporates protein amino acid sequence and structure information to predict protein function.

  Language:Python24

• LucaOne/LucaPCycle

  We developed a dual-channel model named LucaPCycle, based on the raw sequence and protein language large models, to predict whether a protein sequence has phosphate-solubilizing functionality and its specific type among the 31 fine-grained functions.

  Language:Python163

• LucaOne/LucaOneTasks

  The project of the downstream tasks based on LucaOne's Embedding.

  Language:Python395

• LucaOne/AMANet

  KDD '20: Proceedings of the 26th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining: Attention and Memory-Augmented Networks for Dual-View Sequential Learning

  Language:Python23

• LucaOne/LucaOneApp

  LucaOne’s representational inference code. Use this project for embedding inference.

  Language:Python362

• hewm2008/VCF2Dis

  VCF2Dis: an ultra-fast and efficient tool to calculate pairwise genetic distance and construct population phylogeny from VCF files

  Language:C++346

• rasbt/LLMs-from-scratch

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

  Language:Jupyter Notebook37.8k4.9k

• mendableai/firecrawl

  🔥 Turn entire websites into LLM-ready markdown or structured data. Scrape, crawl and extract with a single API.

  Language:TypeScript21.5k1.7k

• zjukg/KG-LLM-Papers

  [Paper List] Papers integrating knowledge graphs (KGs) and large language models (LLMs)

  1.7k122

• LucaOne/LucaOne

  The LucaOne’s code, including model code and pre-training code.

  Language:Python18022

• pachterlab/ffq

  A tool to find sequencing data and metadata from public databases.

  Language:Python55847

• xmuyulab/ims_gene_signature

  Ratio of the interferon-γ signature to the immunosuppression signature predicts anti-PD-1 therapy response in melanoma

  Language:Python114

• STOmics/Stereopy

  A toolkit of spatial transcriptomic analysis.

  Language:Jupyter Notebook21465

• WangXinluan/ChatGPT-Academic

  Language:Python13123

• bowang-lab/scGPT

  Language:Jupyter Notebook1.1k222

• binary-husky/gpt_academic

  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, moss等。

  Language:Python66.8k8.2k

• aristoteleo/spateo-release

  Spatiotemporal modeling of spatial transcriptomics

  Language:Python25331

• aristoteleo/dynamo-release

  Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses

  Language:Python43259

• qczhang/icSHAPE

  icSHAPE pipeline

  Language:Perl2915

• GonghuaLi/GPMM

  Genome-wide precision metabolic modeling

  Language:MATLAB33

• ChristianLieven/Yarrowia_lipolytica_W29-GEM

  Genome-scale model of Yarrowia lipolytica

  Language:Matlab2

• opencobra/COBRA.papers

  Repository for scripts related to reproducing the results of an individual publication

  Language:MATLAB813

• ThieleLab/dwbm

  Language:Objective-C13

• zakandrewking/cobrapy

  COBRApy is a package for constraints-based modeling of biological networks

  Language:Python1

• zakandrewking/escher

  Build, share, and embed visualizations of metabolic pathways.

  Language:JavaScript21376

• BioSystemsUM/troppo

  Reconstruction algorithms for Python

  Language:Jupyter Notebook235

• hklarner/pyboolnet

  PyBoolNet is a Python package for the generation, modification and analysis of Boolean networks.

  Language:Python4321

• HelikarLab/multiscale-CD4Tcells

  Multi-cellular, multi-scale model of CD4+ T cells integrating multiple mathematical and computational approaches.

  Language:MATLAB74

• cosbi-research/QSPcc

  From computationally intractable MATLAB code to ~1600x faster optimized C code

  Language:Java31

• SysBioChalmers/Human-GEM

  The generic genome-scale metabolic model of Homo sapiens

  Language:MATLAB10144