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Helps build LabArchives connections for electronic lab notebooks and laboratory inventory. Guides endpoint selection, request signing for authentication, and user authorization, with local tools to inspect container files and prepare redacted request plans before remote operations.
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Turn supplied data or optional research into infographic drafts for reports, presentations, or social posts. Choose layouts and visual styles, generate PNG images, and use automated reviews to guide revisions while retaining review logs.
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Analyze pooled CRISPR screens from FASTQ reads or guide-count tables using MAGeCK. Validate inputs, assess library and replicate quality, and rank enriched or depleted genes with effect sizes and false discovery rates, which estimate false-positive proportions.
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Screen compound libraries for drug discovery using drug-likeness guidelines, structural alerts that flag patterns for review, and molecular complexity measures. Combine criteria to shortlist candidates and retain filtering results with reasons for further assessment.
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Optimize scientific Python workloads for NVIDIA GPUs by choosing suitable libraries and reducing bottlenecks. Compare outputs with the CPU version and measure complete processing time, including data transfers, to determine whether the GPU implementation provides a useful improvement.
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Finds papers, preprints, citation links, and openly available full text through 18 scholarly APIs. Selects databases for the task and returns relevant records with search parameters, identifiers, and access dates so the retrieval can be repeated.
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Calculate seawater carbonate chemistry from two independent measurements using PyCO2SYS. Produce pH, carbonate species, and mineral saturation results, convert laboratory conditions to ocean conditions, and propagate measurement uncertainty while recording calculation assumptions.
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Plan and audit HypoGeniC workflows that use language models to propose patterns from labeled text. Check configurations, dataset splits, cost limits, and saved predictions while keeping candidate hypotheses separate from scientific confirmation.
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Turn small-molecule structures into numerical features for similarity searches and models that predict activity or properties. Using Molfeat, the skill covers representation choices, invalid inputs, alignment with experimental labels, and saving feature-generation settings for reuse.
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Prepare and analyze genomic intervals, regions defined by chromosome coordinates, with Gtars. Validate BED files, compare overlaps and coverage, combine region sets, and plan tokenization or reference storage while tracking data provenance and resource limits.
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Turn research content into conference posters with editable LaTeX sources and a PDF. Arrange columns, figures, and text using poster templates, then check page dimensions, embedded fonts, and image resolution before printing.
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Look up genes, sequences, protein structures, expression patterns, and disease associations across more than 20 bioinformatics resources using command-line tools or Python. Useful for interactive exploration, with results that can be saved for further analysis.
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Create scientific charts in Python with detailed control over axes, colors, labels, legends, and layout. Arrange multiple plots in one figure and export PNG, PDF, or SVG files for papers and presentations.
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Analyze Neuropixels neural recordings with SpikeInterface, from loading and preprocessing to motion correction and spike sorting, which separates signals by neuron. Calculate quality metrics, review candidate units, and export plots and data for further inspection.
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Search biomedical papers, regulatory documents, clinical trials, and protein records through GXL Paperclip. Extract comparable information across documents, inspect figures, and organize findings with citations linked to the source lines that support them.
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Find and download public cancer imaging data from NCI Imaging Data Commons. Select CT, MR, PET, or pathology datasets using metadata, view images in a browser, and check licenses and citations before using the data.
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Design custom laboratory parts as adjustable build123d models and export STEP, STL, and DXF fabrication files. Check mating dimensions against standards, test geometry, and visually review holders, mounts, microfluidic parts, and other research fixtures before fabrication.
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Prepare small image tiles from whole-slide histology scans with Histolab. Inspect tissue regions, choose random, grid, or score-based extraction, standardize H&E staining, and organize tile datasets with patient-level splits and visual checks.
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Inspect CPU, memory, disk, and accelerator information alongside container and scheduler limits. Produce a JSON snapshot with identifying details removed and conservative worker and memory estimates for planning local workloads, without running stress tests.
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Build Python workloads on Modal for cloud execution, including GPU model training and inference, web APIs, scheduled jobs, and parallel batch processing. Configure container environments, persistent storage, and automatic scaling through the Modal SDK.
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Process calibrated one-dimensional NMR signals into spectra, candidate peaks, and signed integration results. Supports manual phase adjustment, baseline correction, and recorded processing settings so results can be reviewed and reproduced.
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Turn observations or preliminary findings into testable research plans. The skill separates candidate hypotheses from evidence, develops competing explanations and distinguishing predictions, and helps specify measurements and analysis plans for preregistration, a research plan recorded before testing.
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Inspect microscopy data stored on OMERO.server, export selected image metadata, and plan imports or exports. The skill uses explicit data scopes and limits, with dry-run helpers and reviewed targets for workflows that change server data.
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Clean and compare tandem mass spectra, measurements used to study molecular fragments, with matchms. Standardize metadata, filter peaks, search reference libraries, and export ranked candidate matches with similarity scores and matched-peak counts.
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