Guarded Resampling for Safe and Automated Machine Learning in R

Code associated with the data analysis for Miyoshi & Morabito 2024

Immunotherapy response prediction using pathway knowledge-informed graph neural network

This repository includes the code used in our multiomics BMI study.

Book about interpretable machine learning

A newly developed metabolic modeling pipeline, SuperCC, which could simulate the performances of different microbiomes.

Analyses in R and Python Using curatedMetagenomicData

A curated list of awesome R packages, frameworks and software.

Everything is Linkable

SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same species) using genome synteny.

论文写作与资料分享

Documentation that simply works

Please use opencobra/escher for current Escher development. That repository is the preferred home for the latest community-maintained version of Escher and is aligned with the npm package, PyPI pac…

🌟 The Multi-Agent Framework: First AI Software Company, Towards Natural Language Programming

Multi-Omics Factor Analysis

Text and supporting code for Think Stats, 2nd Edition

CarveMe: genome-scale metabolic model reconstruction

VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies

Multinomial Logistic-Normal Models (really fast)

Network construction, analysis, and comparison for microbial compositional data

Untargeted metabolomics workflow for large-scale data processing and analysis implemented in Snakemake

A library for creating complex UpSet plots with ggplot2 geoms

Search the biomedical literature for protein interactions and protein associations

An r package for generating beautiful and customizable heatmaps

Notes on single-cell Hi-C technologies, tools, and data

SnapHiC: Single Nucleus Analysis Pipeline for Hi-C Data

R toolkit for the analysis of single-cell chromatin data