@billwanttobetop

auto-proteomics routes processed dda lfq protein quantification tables through two-group differential analysis, producing normalized matrices, qc outputs, and statistical comparisons via file-driven bash entrypoint.

phylo-tree generates publication-quality maximum likelihood phylogenetic trees and figures from enzyme names or fasta sequences, with model selection, bootstrap support, and multiple visualization formats suitable for high-impact journals.

protein-qc-strict documents a protein sequence filtering pipeline (3365 to 456 sequences) combining literature validation, cd-hit redundancy removal, complexity checks, and motif verification. execution relies on external binaries (mafft, cd-hit, trimal) but lacks clear trigger conditions and decision logic.

AutoMD-GROMACS: AI-friendly molecular dynamics automation for GROMACS with workflow, enhanced sampling, special-system simulation, advanced analysis, and pub...

为 AI 模型项目创建标准化目录结构：覆盖数据→分词→模型→实验全链路，支持多方案并行、来源追踪、质量记录。内置健康检查、追踪链、实验对比、checkpoint管理。严格文档规范防止 AI 生成冗余文档。

Professional protein sequence quality control and visualization workflow. Includes complete QC pipeline (length filter, CD-HIT, complexity check, motif verif...

Comprehensive protein family phylogenetic analysis workflow with quality control, conservation analysis, coevolution network analysis, and publication-ready...