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from aipoch
Open-source structure prediction for protein, nucleic-acid, and small-molecule complexes.
Boltz-2 is an open-weights diffusion co-folder and AlphaFold3 alternative designed for scientific discovery. It predicts the 3D structures of complex biomolecular systems including proteins, DNA, RNA, and small-molecule ligands.
Core Features:
Technical Details:
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Seq Wrangler
Sequence data QC, trimming, alignment, and BAM processing pipeline helper — wraps FastQC, fastp/Trimmomatic, BWA/Bowtie2/Minimap2, and SAMtools for automated re
ToolUniverse Gateway
Unified agent gateway to 1000+ scientific tools (bioinformatics, drug discovery, genomics) via Harvard's ToolUniverse, returning JSON for downstream workflows.
MatchMS (mass spectrometry processing)
Mass spectrometry data processing: import/export mzML/MGF/MSP, filter and normalize spectra, compute spectral similarity (cosine/modified cosine), and build rep
KEGG Pathway Enrichment (clusterProfiler)
Run KEGG pathway and module enrichment using clusterProfiler (enrichKEGG/enrichMKEGG) to find metabolic and signaling pathways over-represented in a gene list.
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Bizard — Biomedical Visualization Atlas
A comprehensive atlas of biomedical data visualization tutorials and examples (R/Python/Julia) that provides reproducible code and guidance for plots used in bi
Bismark Methylation Calling
Extract per-cytosine methylation calls (CpG/CHG/CHH) from Bismark-aligned BAMs and produce bedGraph/coverage reports for downstream analysis.
E.Copi — Scientific Multi-Agent System
Multi-expert scientific agent for drug discovery and biomedical research that instantiates domain specialists, integrates multimodal evidence, and generates ana