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upstream-sync/tooluniverse-20261103-aafb6f-tgab
drug-discovery-prompts/upstream/K-Dense-AI-scientific-agent-skills/skills
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promptadmin efe4bd069d Merge upstream-sync PR #57 (upstream-sync/scientific-agent-skills-20260829-72d742-nlvh) 
Conflicts resolved keeping the upstream version: 1 file(s); deleted upstream: 0 file(s). Automated by resolve_upstream_sync.sh.
2026-10-26 17:08:10 +00:00
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adaptyv/references
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aeon/references
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anndata
[upstream-sync] skills/anndata/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:21:11 +00:00
arbor/references
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arboreto
[upstream-sync] skills/arboreto/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:21:15 +00:00
astropy
[upstream-sync] skills/astropy/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:21:17 +00:00
benchling-integration/references
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bids
[upstream-sync] skills/bids/references/core_workflows.md from K-Dense-AI/scientific-agent-skills@991bd993 [prompt]
2026-08-08 15:35:20 +00:00
biopython
[upstream-sync] skills/biopython/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:21:25 +00:00
bioservices
[upstream-sync] skills/bioservices/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:21:27 +00:00
cellxgene-census
[upstream-sync] skills/cellxgene-census/references/core_workflow_patterns.md from K-Dense-AI/scientific-agent-skills@991bd993 [prompt]
2026-08-08 15:35:27 +00:00
cirq
[upstream-sync] skills/cirq/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:21:34 +00:00
citation-management
Merge upstream-sync PR #28 (upstream-sync/scientific-agent-skills-20260721-831d49-dbmh)
2026-10-26 17:06:04 +00:00
clinical-decision-support
[upstream-sync] skills/clinical-decision-support/SKILL.md from K-Dense-AI/scientific-agent-skills@831d49eb [prompt]
2026-07-21 21:51:40 +00:00
cobrapy
[upstream-sync] skills/cobrapy/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:21:43 +00:00
dask/references
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database-lookup
[upstream-sync] skills/database-lookup/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:21:48 +00:00
datamol
[upstream-sync] skills/datamol/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:21:50 +00:00
deepchem
[upstream-sync] skills/deepchem/references/workflows.md from K-Dense-AI/scientific-agent-skills@991bd993 [prompt]
2026-08-08 15:43:53 +00:00
deepspot-m
[upstream-sync] skills/deepspot-m/references/whole_slide.md from K-Dense-AI/scientific-agent-skills@991bd993 [prompt]
2026-08-08 15:37:08 +00:00
deeptools/references
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depmap
[upstream-sync] skills/depmap/SKILL.md from K-Dense-AI/scientific-agent-skills@991bd993 [prompt]
2026-08-08 15:44:12 +00:00
diffdock
[upstream-sync] skills/diffdock/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:21:57 +00:00
dnanexus-integration/references
[upstream-sync] skills/dnanexus-integration/references/python-sdk.md from K-Dense-AI/scientific-agent-skills@757b63b1 [prompt]
2026-07-24 23:26:18 +00:00
esm/references
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etetoolkit
[upstream-sync] skills/etetoolkit/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:22:05 +00:00
experimental-design
[upstream-sync] skills/experimental-design/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:22:07 +00:00
exploratory-data-analysis
[upstream-sync] skills/exploratory-data-analysis/assets/report_template.md from K-Dense-AI/scientific-agent-skills@757b63b1 [prompt]
2026-07-24 23:28:09 +00:00
flowio
[upstream-sync] skills/flowio/references/workflows.md from K-Dense-AI/scientific-agent-skills@757b63b1 [prompt]
2026-07-24 23:11:04 +00:00
fluidsim
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geniml/references
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genomic-intelligence
[upstream-sync] skills/genomic-intelligence/SKILL.md from K-Dense-AI/scientific-agent-skills@991bd993 [prompt]
2026-08-08 15:46:06 +00:00
geomaster/references
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gget/references
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glycoengineering
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gtars/references
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histolab/references
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hypogenic
[upstream-sync] skills/hypogenic/references/upstream.md from K-Dense-AI/scientific-agent-skills@757b63b1 [prompt]
2026-07-24 23:16:36 +00:00
hypothesis-generation
Merge upstream-sync PR #29 (upstream-sync/scientific-agent-skills-20260724-757b63-dcry)
2026-10-26 17:06:14 +00:00
imaging-data-commons
[upstream-sync] skills/imaging-data-commons/references/use_cases.md from K-Dense-AI/scientific-agent-skills@d661d27e [prompt]
2026-08-11 03:59:54 +00:00
infographics
[upstream-sync] skills/infographics/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:22:50 +00:00
iso-13485-certification/assets/templates
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labarchive-integration/references
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lamindb
[upstream-sync] skills/lamindb/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:23:01 +00:00
latchbio-integration/references
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latex-posters
[upstream-sync] skills/latex-posters/SKILL.md from K-Dense-AI/scientific-agent-skills@831d49eb [prompt]
2026-07-21 21:52:49 +00:00
liteparse/references
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markdown-mermaid-writing
[upstream-sync] skills/markdown-mermaid-writing/references/mermaid_style_guide.md from K-Dense-AI/scientific-agent-skills@a1b84fb2 [prompt]
2026-07-26 10:05:51 +00:00
market-research-reports
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markitdown
[upstream-sync] skills/markitdown/references/api_reference.md from K-Dense-AI/scientific-agent-skills@831d49eb [prompt]
2026-07-21 21:53:41 +00:00
matchms/references
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matlab
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matplotlib/references
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modal
[upstream-sync] skills/modal/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:23:30 +00:00
molecular-dynamics
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molfeat/references
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networkx/references
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neuropixels-analysis/references
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nextflow
[upstream-sync] skills/nextflow/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:23:44 +00:00
omero-integration
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open-notebook
[upstream-sync] skills/open-notebook/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:23:51 +00:00
optimize-for-gpu
[upstream-sync] skills/optimize-for-gpu/references/raft.md from K-Dense-AI/scientific-agent-skills@26fd7a84 [prompt]
2026-07-04 20:01:52 +00:00
paper-lookup
[upstream-sync] skills/paper-lookup/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:23:58 +00:00
pathml/references
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pdf
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pennylane
[upstream-sync] skills/pennylane/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:24:16 +00:00
phylogenetics
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pi-agent/references
[upstream-sync] skills/pi-agent/references/usage.md from K-Dense-AI/scientific-agent-skills@b2a92ba0 [prompt]
2026-08-14 22:14:12 +00:00
polars/references
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pptx
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pptx-posters/references
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protocolsio-integration
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pufferlib/references
[upstream-sync] skills/pufferlib/references/policies.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:34:54 +00:00
pydeseq2
[upstream-sync] skills/pydeseq2/references/workflow_guide.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:35:26 +00:00
pydicom
[upstream-sync] skills/pydicom/references/transfer_syntaxes.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:35:39 +00:00
pyhealth/references
[upstream-sync] skills/pyhealth/references/tasks.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:36:19 +00:00
pylabrobot/references
[upstream-sync] skills/pylabrobot/references/visualization.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:36:53 +00:00
pymatgen
[upstream-sync] skills/pymatgen/references/transformations_workflows.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:37:24 +00:00
pymc/references
[upstream-sync] skills/pymc/references/workflows.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:37:44 +00:00
pymoo
[upstream-sync] skills/pymoo/references/visualization.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:38:19 +00:00
pyopenms/references
[upstream-sync] skills/pyopenms/references/signal_processing.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:38:55 +00:00
pysam
[upstream-sync] skills/pysam/references/variant_files.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:39:24 +00:00
pytdc/references
[upstream-sync] skills/pytdc/references/utilities.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:39:43 +00:00
pytorch-lightning/references
[upstream-sync] skills/pytorch-lightning/references/trainer.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:40:26 +00:00
pyzotero/references
[upstream-sync] skills/pyzotero/references/files-attachments.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:41:04 +00:00
qiskit/references
[upstream-sync] skills/qiskit/references/transpilation.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:42:38 +00:00
qutip/references
[upstream-sync] skills/qutip/references/visualization.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:43:22 +00:00
rdkit
[upstream-sync] skills/rdkit/references/smarts_patterns.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:43:58 +00:00
research-grants/references
[upstream-sync] skills/research-grants/references/nstc_guidelines.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:44:58 +00:00
rowan
[upstream-sync] skills/rowan/references/troubleshooting.md from K-Dense-AI/scientific-agent-skills@72d742e1 [prompt]
2026-08-29 17:06:10 +00:00
scanpy
[upstream-sync] skills/scanpy/SKILL.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:45:28 +00:00
scientific-schematics/references
[upstream-sync] skills/scientific-schematics/references/README.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:47:20 +00:00
scientific-slides
[upstream-sync] skills/scientific-slides/SKILL.md from K-Dense-AI/scientific-agent-skills@831d49eb [prompt]
2026-07-21 21:55:28 +00:00
scientific-visualization
[upstream-sync] skills/scientific-visualization/references/matplotlib_examples.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:48:44 +00:00
scientific-writing
[upstream-sync] skills/scientific-writing/SKILL.md from K-Dense-AI/scientific-agent-skills@831d49eb [prompt]
2026-07-21 21:55:42 +00:00
scikit-bio/references
[upstream-sync] skills/scikit-bio/references/api_reference.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:50:03 +00:00
scikit-learn/references
[upstream-sync] skills/scikit-learn/references/unsupervised_learning.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:52:08 +00:00
scikit-survival
[upstream-sync] skills/scikit-survival/references/svm-models.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:53:09 +00:00
scvi-tools/references
[upstream-sync] skills/scvi-tools/references/workflows.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:54:15 +00:00
seaborn
[upstream-sync] skills/seaborn/references/function_reference.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:54:30 +00:00
shap
[upstream-sync] skills/shap/references/workflows.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:55:06 +00:00
simpy
[upstream-sync] skills/simpy/references/resources.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:55:40 +00:00
stable-baselines3/references
[upstream-sync] skills/stable-baselines3/references/vectorized_envs.md from K-Dense-AI/scientific-agent-skills@72d742e1 [prompt]
2026-08-29 17:06:20 +00:00
statistical-analysis/references
[upstream-sync] skills/statistical-analysis/references/assumptions_and_diagnostics.md from K-Dense-AI/scientific-agent-skills@26fd7a84 [prompt]
2026-07-04 20:03:18 +00:00
statsmodels/references
[upstream-sync] skills/statsmodels/references/time_series.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:57:52 +00:00
sympy/references
[upstream-sync] skills/sympy/references/matrices-linear-algebra.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:58:16 +00:00
tamarind
[upstream-sync] skills/tamarind/references/workflows.md from K-Dense-AI/scientific-agent-skills@0807ddbc [prompt]
2026-06-30 01:33:43 +00:00
timesfm-forecasting
[upstream-sync] skills/timesfm-forecasting/references/data_preparation.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 00:59:12 +00:00
torch-geometric
[upstream-sync] skills/torch-geometric/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:26:21 +00:00
torchdrug/references
[upstream-sync] skills/torchdrug/references/knowledge_graphs.md from K-Dense-AI/scientific-agent-skills@e8727695 [prompt]
2026-07-20 21:32:22 +00:00
transformers/references
[upstream-sync] skills/transformers/references/tokenizers.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 01:01:14 +00:00
treatment-plans
[upstream-sync] skills/treatment-plans/SKILL.md from K-Dense-AI/scientific-agent-skills@831d49eb [prompt]
2026-07-21 21:56:00 +00:00
usfiscaldata
[upstream-sync] skills/usfiscaldata/SKILL.md from K-Dense-AI/scientific-agent-skills@1e5eeffb [prompt]
2026-09-02 17:26:35 +00:00
vaex/references
[upstream-sync] skills/vaex/references/visualization.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 01:03:56 +00:00
venue-templates/references
[upstream-sync] skills/venue-templates/references/posters_guidelines.md from K-Dense-AI/scientific-agent-skills@e8727695 [prompt]
2026-07-20 21:38:30 +00:00
xlsx
[upstream-sync] skills/xlsx/SKILL.md from K-Dense-AI/scientific-agent-skills@9c9bd2e9 [prompt]
2026-06-27 01:06:13 +00:00