#1
Python package for graph neural networks in chemistry and biology
805 starsNov 1, 2023 pushgeo-sciencePythonBioinformatics
$ npx skills add awslabs/dgl-lifesciAlternatives
Graphein alternatives for AI agents.
Compare similar skills by workflow fit, trust score, quality, GitHub adoption, maintenance, and install readiness.
Current skill
Graphein
Protein Graph Library
100
Quality
92
Trust
1.2K
Stars
#2
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
1.2K starsJun 10, 2024 pushgeo-scienceJupyter NotebookBioinformatics
$ npx skills add kexinhuang12345/DeepPurpose#3
Working with molecular structures in pandas DataFrames
752 starsMay 22, 2026 pushgeo-sciencePythonBioinformatics
$ npx skills add BioPandas/biopandas#4
scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.
1.2K starsJun 8, 2026 pushgeo-sciencePythonBioinformatics
$ npx skills add scikit-bio/scikit-bio#5
Making Protein folding accessible to all!
2.8K starsJun 15, 2026 pushgeo-scienceJupyter NotebookBioinformatics
$ npx skills add sokrypton/ColabFold#6
A comprehensive library for computational molecular biology
958 starsJun 11, 2026 pushgeo-sciencePythonBioinformatics
$ npx skills add biotite-dev/biotite#7
A Go package for engineering organisms.
729 starsJun 10, 2026 pushgeo-scienceGoBioinformatics
$ npx skills add bebop/poly#8
Cell type annotation for single-cell RNA-seq using multi-LLM consensus
646 starsJun 15, 2026 pushgeo-sciencePythonBioinformatics
$ npx skills add cafferychen777/mLLMCelltype#9
COBRApy is a package for constraint-based modeling of metabolic networks.
568 starsJun 6, 2026 pushgeo-sciencePythonBioinformatics
$ npx skills add opencobra/cobrapy#10
Official git repository for Biopython (originally converted from CVS)
5.1K starsJun 8, 2026 pushgeo-sciencePythonBioinformatics
$ npx skills add biopython/biopython#11
Therapeutics Commons (TDC): Multimodal Foundation for Therapeutic Science
1.3K starsJul 13, 2025 pushgeo-scienceJupyter NotebookBioinformatics
$ npx skills add mims-harvard/TDC#12
A DSL for data-driven computational pipelines
3.4K starsJun 16, 2026 pushgeo-scienceGroovyBioinformatics
$ npx skills add nextflow-io/nextflow#13
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
2.4K starsJun 1, 2026 pushgeo-scienceC++Bioinformatics
$ npx skills add OpenGene/fastp#14
Single-cell analysis in Python. Scales to >100M cells.
2.5K starsJun 15, 2026 pushgeo-sciencePythonBioinformatics
$ npx skills add scverse/scanpy#15
MMseqs2: ultra fast and sensitive search and clustering suite
2.1K starsJun 15, 2026 pushgeo-scienceCBioinformatics
$ npx skills add soedinglab/MMseqs2#16
A versatile pairwise aligner for genomic and spliced nucleotide sequences
2.2K starsMay 19, 2026 pushgeo-scienceCBioinformatics
$ npx skills add lh3/minimap2How to choose
When should you switch?
Use an alternative when it has a clearer install path, higher trust score, fresher maintenance, or better platform fit for your current agent stack. Keep Graphein if it already passes your workflow test and repository review.
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