#1
Java utilities for Bioinformatics
523 starsMay 7, 2026 pushgeo-scienceJavaBioinformatics
$ npx skills add lindenb/jvarkitAlternatives
Cdk alternatives for AI agents.
Compare similar skills by workflow fit, trust score, quality, GitHub adoption, maintenance, and install readiness.
Current skill
Cdk
The Chemistry Development Kit
85
Quality
86
Trust
585
Stars
#2
Therapeutics Commons (TDC): Multimodal Foundation for Therapeutic Science
1.3K starsJul 13, 2025 pushgeo-scienceJupyter NotebookBioinformatics
$ npx skills add mims-harvard/TDC#3
Making Protein folding accessible to all!
2.8K starsJun 15, 2026 pushgeo-scienceJupyter NotebookBioinformatics
$ npx skills add sokrypton/ColabFold#4
A versatile pairwise aligner for genomic and spliced nucleotide sequences
2.2K starsMay 19, 2026 pushgeo-scienceCBioinformatics
$ npx skills add lh3/minimap2#5
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#6
Conda recipes for the bioconda channel.
1.8K starsJun 16, 2026 pushgeo-scienceShellBioinformatics
$ npx skills add bioconda/bioconda-recipes#7
A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
1.0K starsJun 14, 2026 pushgeo-sciencePythonBioinformatics
$ npx skills add omicverse/omicverse#8
:book::microscope::coffee: BioJava is an open-source project dedicated to providing a Java library for processing biological data.
622 starsMay 5, 2026 pushgeo-scienceJavaBioinformatics
$ npx skills add biojava/biojava#9
Foldseek enables fast and sensitive comparisons of large structure sets.
1.2K starsMay 13, 2026 pushgeo-scienceCBioinformatics
$ npx skills add steineggerlab/foldseek#10
ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.
1.1K starsMar 17, 2026 pushgeo-scienceScalaBioinformatics
$ npx skills add bigdatagenomics/adam#11
Official code repository for GATK versions 4 and up
2.0K starsJun 16, 2026 pushgeo-scienceJavaBioinformatics
$ npx skills add broadinstitute/gatk#12
A full spaCy pipeline and models for scientific/biomedical documents.
2.0K starsDec 4, 2025 pushgeo-sciencePythonBioinformatics
$ npx skills add allenai/scispacy#13
A comprehensive library for computational molecular biology
958 starsJun 11, 2026 pushgeo-sciencePythonBioinformatics
$ npx skills add biotite-dev/biotite#14
Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight wrapper of the HTSlib API, the same one that powers samtools, bcftools, and tabix.
895 starsJun 3, 2026 pushgeo-scienceCythonBioinformatics
$ npx skills add pysam-developers/pysam#15
Specification for the Workflow Description Language (WDL).
852 starsJun 15, 2026 pushgeo-scienceBioinformaticsClaude Code
$ npx skills add openwdl/wdl#16
Plant phenotyping with image analysis
798 starsJun 15, 2026 pushgeo-sciencePythonBioinformatics
$ npx skills add danforthcenter/plantcvHow 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 Cdk if it already passes your workflow test and repository review.
Next step
Compare top candidates side by side
Open the compare page, test the install commands in a sandbox, and check each repository before using a skill in production.