drshailesh88/integrated_content_os

1

scikit-survival Comprehensive toolkit for survival analysis and time-to-event modeling in Python using scikit-survival. Use this skil…

drshailesh88/integrated_content_os

25

2

scvi-tools This skill should be used when working with single-cell omics data analysis using scvi-tools, including scRNA-seq, sc…

drshailesh88/integrated_content_os

25

3

shap Model interpretability and explainability using SHAP (SHapley Additive exPlanations). Use this skill when explaining …

drshailesh88/integrated_content_os

25

4

simpy Process-based discrete-event simulation framework in Python. Use this skill when building simulations of systems with…

drshailesh88/integrated_content_os

25

5

statsmodels Statistical modeling toolkit. OLS, GLM, logistic, ARIMA, time series, hypothesis tests, diagnostics, AIC/BIC, for rig…

drshailesh88/integrated_content_os

25

6

string-database Query STRING API for protein-protein interactions (59M proteins, 20B interactions). Network analysis, GO/KEGG enrichm…

drshailesh88/integrated_content_os

25

7

sympy Use this skill when working with symbolic mathematics in Python. This skill should be used for symbolic computation t…

drshailesh88/integrated_content_os

25

8

torch-geometric Graph Neural Networks (PyG). Node/graph classification, link prediction, GCN, GAT, GraphSAGE, heterogeneous graphs, m…

drshailesh88/integrated_content_os

25

9

torchdrug Graph-based drug discovery toolkit. Molecular property prediction (ADMET), protein modeling, knowledge graph reasonin…

drshailesh88/integrated_content_os

25

10

transformers This skill should be used when working with pre-trained transformer models for natural language processing, computer …

drshailesh88/integrated_content_os

25

11

umap-learn UMAP dimensionality reduction. Fast nonlinear manifold learning for 2D/3D visualization, clustering preprocessing (HD…

drshailesh88/integrated_content_os

25

12

uniprot-database Direct REST API access to UniProt. Protein searches, FASTA retrieval, ID mapping, Swiss-Prot/TrEMBL. For Python workf…

drshailesh88/integrated_content_os

25

13

zarr-python Chunked N-D arrays for cloud storage. Compressed arrays, parallel I/O, S3/GCS integration, NumPy/Dask/Xarray compatib…

drshailesh88/integrated_content_os

25

14

adaptyv Cloud laboratory platform for automated protein testing and validation. Use when designing proteins and needing exper…

drshailesh88/integrated_content_os

24

15

aeon This skill should be used for time series machine learning tasks including classification, regression, clustering, fo…

drshailesh88/integrated_content_os

24

16

alphafold-database Access AlphaFold's 200M+ AI-predicted protein structures. Retrieve structures by UniProt ID, download PDB/mmCIF files…

drshailesh88/integrated_content_os

24

17

anndata This skill should be used when working with annotated data matrices in Python, particularly for single-cell genomics …

drshailesh88/integrated_content_os

24

18

arboreto Infer gene regulatory networks (GRNs) from gene expression data using scalable algorithms (GRNBoost2, GENIE3). Use wh…

drshailesh88/integrated_content_os

24

19

brenda-database Access BRENDA enzyme database via SOAP API. Retrieve kinetic parameters (Km, kcat), reaction equations, organism data…

drshailesh88/integrated_content_os

24

20

pymoo Multi-objective optimization framework. NSGA-II, NSGA-III, MOEA/D, Pareto fronts, constraint handling, benchmarks (ZD…

drshailesh88/integrated_content_os

24

21

pdf PDF manipulation toolkit. Extract text/tables, create PDFs, merge/split, fill forms, for programmatic document proces…

drshailesh88/integrated_content_os

23

22

pptx Presentation toolkit (.pptx). Create/edit slides, layouts, content, speaker notes, comments, for programmatic present…

drshailesh88/integrated_content_os

23

23

xlsx Spreadsheet toolkit (.xlsx/.csv). Create/edit with formulas/formatting, analyze data, visualization, recalculate form…

drshailesh88/integrated_content_os

21

24

infographic-copy Transforms research and knowledge base material into information-dense infographic copy—clear, scannable, authoritati…

drshailesh88/integrated_content_os

9

25

system-awareness Manages all other skills by detecting capability gaps, proposing new skills, and keeping the system registry in sync.…

drshailesh88/integrated_content_os

9

26

visual-design-system Publication-grade design tokens and utilities for Nature/JACC/NEJM quality graphics. Use when generating charts, info…

drshailesh88/integrated_content_os

8