Skills & Agent Building
5,949 results
- Running Claude Code Via Litellm Copilotxixu-meUse when routing Claude Code through a local LiteLLM proxy to GitHub Copilot, reducing direct Anthropic spend, configuring ANTHROPIC_BASE_URL or ANTHROPIC_MODEL overrides, or troubleshooting Copilot proxy setup failures such as model-not-found, no localhost traffic, or GitHub 401/403 auth errors.
- Skills Clixixu-meUse when users ask to discover, install, list, check, update, remove, back up, restore, sync, or initialize Agent Skills, mention `bunx skills`, `npx skills`, `skills.sh`, or `skills-lock.json`, ask "find a skill for X", or want help extending agent capabilities with installable skills.
- Xdropxixu-meUse this skill when the user wants to send or fetch files through an Xdrop server from the terminal, asks to automate encrypted Xdrop share-link workflows, provides an Xdrop `/t/:transferId#k=...` link to download and decrypt locally, or needs Xdrop CLI flags such as `--quiet`, `--json`, `--expires-in`, `--output`, or `--api-url`, even if they do not explicitly mention the skill name.
- Add Skillhtlin222Create new Claude Code skills with proper structure. Use when user wants to add a skill, create a slash command, or automate a workflow. Fetches official docs and guides through skill creation.
- Alterlab MatchmsAlterLab Creative Technologies LaboratoryComputes mass-spectral similarity and identifies compounds for metabolomics with matchms — comparing mass spectra, scoring similarity (cosine, modified cosine), and searching spectral libraries to annotate unknowns. Use when matching MS/MS spectra, identifying metabolites, or library searching; for full LC-MS/MS proteomics pipelines use alterlab-pyopenms.
- Alterlab Neurokit2AlterLab Creative Technologies LaboratoryProcesses and analyzes physiological biosignals with the NeuroKit2 Python toolkit — ECG, EEG, EDA, RSP, PPG, EMG, and EOG signals. Use when processing cardiovascular signals, brain activity, electrodermal responses, respiratory patterns, muscle activity, or eye movements, or when computing heart rate variability (HRV), event-related potentials, complexity measures, autonomic nervous system…
- Alterlab NeuropixelsAlterLab Creative Technologies LaboratoryAnalyze Neuropixels 1.0/2.0 extracellular electrophysiology with SpikeInterface — load SpikeGLX/Open Ephys recordings, preprocess and motion-correct, run Kilosort4 spike sorting, compute quality metrics, apply Allen/IBL curation, and do AI-assisted visual inspection.
- Alterlab Nf Core SarekAlterLab Creative Technologies LaboratoryRuns FASTQ-to-VCF germline and somatic variant calling via the Nextflow nf-core/sarek pipeline pinned to -r 3.10.0 — builds the samplesheet.csv (patient, sex, status, sample, lane, fastq_1, fastq_2), runs bwa-mem/bwa-mem2/dragmap alignment plus GATK4 MarkDuplicates and BQSR against the GATK GRCh38 resource bundle (dbSNP, Mills/1000G indels), and selects callers — explicitly correcting that sarek…
- Alterlab PrimekgAlterLab Creative Technologies LaboratoryQueries the Precision Medicine Knowledge Graph (PrimeKG) for multiscale biomedical relationships across genes, drugs, diseases, phenotypes, pathways, and biological processes. Use when exploring drug-disease or gene-disease links, building disease-centric knowledge subgraphs, or sourcing relations for drug repurposing and precision-medicine analyses; also points to OptimusKG, the maintainers'…
- Alterlab PufferlibAlterLab Creative Technologies LaboratoryScales reinforcement learning with PufferLib — high-throughput parallel training (PuffeRL), vectorized environments, and native multi-agent systems achieving 2-10x speedups over standard implementations.
- Alterlab PymcAlterLab Creative Technologies LaboratoryBayesian modeling and probabilistic programming with PyMC 6 and ArviZ 1.x — hierarchical models, MCMC (NUTS via PyMC, nutpie, NumPyro, or BlackJAX), variational inference, PSIS-LOO model comparison, and prior/posterior predictive checks.
- Alterlab Pytorch LightningAlterLab Creative Technologies LaboratoryScalable deep-learning training with PyTorch Lightning — organize PyTorch code into LightningModules, configure Trainers for multi-GPU/TPU, build data pipelines and callbacks, log to W&B or TensorBoard, and run distributed training (DDP, FSDP, DeepSpeed).
- Alterlab Qiime2 AmpliconAlterLab Creative Technologies LaboratoryRuns 16S/ITS amplicon (microbiome) analysis with the QIIME 2 distribution (2026.7; the "amplicon" distribution was renamed "qiime2" in 2026.4) in the correct order: manifest import, cutadapt trim-paired primer removal BEFORE dada2 denoise-paired (trunc-len chosen from the demux quality .qzv), feature-classifier classify-sklearn against a version-matched SILVA 138 or Greengenes2 classifier, and…
- Alterlab ScanpyAlterLab Creative Technologies LaboratoryRun the standard single-cell RNA-seq analysis pipeline with Scanpy on AnnData — QC filtering, normalization, dimensionality reduction (PCA, UMAP, t-SNE), Leiden/Louvain clustering, marker/differential expression, PAGA trajectories, and plotting.
- Alterlab Scikit SurvivalAlterLab Creative Technologies LaboratorySurvival analysis and time-to-event modeling in Python with scikit-survival. Use when working with censored survival data, fitting Cox models, Random Survival Forests, Gradient Boosting models, or Survival SVMs, evaluating predictions with concordance index or Brier score, handling competing risks, or implementing any time-to-event workflow. Part of the AlterLab Academic Skills suite.
- Alterlab ScveloAlterLab Creative Technologies LaboratoryRun RNA velocity analysis with scVelo on single-cell RNA-seq data — estimate cell-state transitions from spliced/unspliced mRNA dynamics, infer trajectory direction, compute latent time, and identify driver genes.
- Alterlab Scvi ToolsAlterLab Creative Technologies LaboratoryTrain deep generative models for single-cell omics with scvi-tools — probabilistic batch correction and integration (scVI), reference-mapping transfer learning (scArches), differential expression with uncertainty, and multimodal models (totalVI for CITE-seq, MultiVI for multiome).
- Alterlab ShapAlterLab Creative Technologies LaboratoryModel interpretability and explainability with SHAP (SHapley Additive exPlanations) — feature importance and plots (waterfall, beeswarm, bar, scatter, force, heatmap). Use when explaining ML model predictions, computing feature importance, debugging models, analyzing bias or fairness, comparing models, or implementing explainable AI across tree-based models (XGBoost, LightGBM, Random Forest)…
- Alterlab SimpyAlterLab Creative Technologies LaboratoryProcess-based discrete-event simulation in Python with SimPy — processes, queues, shared resources, and time-based events. Use when simulating systems where entities contend for shared resources over time, such as manufacturing systems, service operations, network traffic, or logistics. Part of the AlterLab Academic Skills suite.
- Alterlab Skill FinderAlterLab Creative Technologies LaboratoryThe AlterLab front door and multi-agent launcher — routes a task to the right AlterLab skill(s) when the user invokes the suite without naming one, and for a multi-stage goal (or on the keyword 'alterflow', aliases 'alterresearch' / 'ultralab') it clarifies the goal with a few questions before anything runs, selects the skills the task needs, and runs a multi-agent workflow composing them (a…
- Alterlab Squidpy SpatialAlterLab Creative Technologies LaboratoryAnalyzes spatial transcriptomics with squidpy (1.8.x) on AnnData and SpatialData objects, routing platforms correctly: Visium spots use spatial_neighbors(coord_type='grid') and pair with deconvolution, while Xenium/MERFISH single-cell data use coord_type='generic'/Delaunay neighbors and spatialdata-io readers (xenium, visium_hd, merscope).
- Alterlab Stable Baselines3AlterLab Creative Technologies LaboratoryTrains single-agent reinforcement learning agents with Stable-Baselines3 — PPO, SAC, DQN, TD3, DDPG, and A2C behind a scikit-learn-like API. Use for standard single-agent RL experiments, quick prototyping, well-documented algorithm implementations on Gymnasium environments, or adding callbacks and evaluation.
- Cleanup Lead OwnersTom GranotRemove non-employee users from HubSpot and reassign their orphaned contacts, companies, and deals. Pairs with the assign-unowned-contacts skill for comprehensive ownership cleanup.
- Git WorkflowbobmatnycEssential Git patterns for effective version control, eliminating redundant Git guidance per agent.