Claude MarketplacesSubmit
K-Dense-AI avatar

K-Dense-AI/scientific-agent-skills

skills.sh installs
22.1K
skills
17
View on GitHub

Install

$ npx -y skills add K-Dense-AI/scientific-agent-skills --agent claude-code

Installs into .claude/skills of the current project.

Skills

1K-Dense-AI avatarbidsK-Dense-AI/scientific-agent-skillsUse this skill when working with Brain Imaging Data Structure (BIDS) datasets: organizing neuroscience and biomedical data (MRI, EEG, MEG, iEEG, PET, microscopy1.6Kskills.sh installs
2K-Dense-AI avatarliteparseK-Dense-AI/scientific-agent-skillsLocal document and PDF parsing that returns spatial text with bounding boxes. Use for extracting text from PDFs, DOCX, Office files, and images; running OCR on 1.6Kskills.sh installs
3K-Dense-AI avatarpacsomaticK-Dense-AI/scientific-agent-skillsOperator toolkit for nf-core/pacsomatic matched tumor-normal workflows from BAM inputs. Use this skill when the user needs to validate run inputs, generate pacs1.6Kskills.sh installs
4K-Dense-AI avatarexperimental-designK-Dense-AI/scientific-agent-skillsDesign experiments and studies BEFORE data is collected — choosing a design, randomizing, blocking, and laying out treatment combinations so results are interpr1.5Kskills.sh installs
5K-Dense-AI avatarbulk-rnaseqK-Dense-AI/scientific-agent-skillsEnd-to-end bulk RNA-seq orchestrator — takes raw FASTQ reads through QC and trimming (FastQC, fastp/Trim Galore), alignment and quantification (STAR, Salmon, fe1.5Kskills.sh installs
6K-Dense-AI avatarpathway-enrichmentK-Dense-AI/scientific-agent-skillsRun pathway and gene-set enrichment analysis on gene lists or ranked gene data, then interpret the results. Use whenever the user has a set of genes (differenti1.5Kskills.sh installs
7K-Dense-AI avatarnextflowK-Dense-AI/scientific-agent-skillsBuild, run, and debug Nextflow data pipelines and nf-core workflows end to end. Use whenever the user mentions Nextflow, nf-core, .nf files, nextflow.config, DS1.5Kskills.sh installs
8K-Dense-AI avatarstatistical-powerK-Dense-AI/scientific-agent-skillsSample-size and statistical power calculations for planning studies. Use whenever someone asks "how many subjects/samples/replicates do I need", wants an a prio1.5Kskills.sh installs
9K-Dense-AI avataronekgpdK-Dense-AI/scientific-agent-skillsQuery the 1000 Genomes Project dataset (3,202 whole-genome-sequenced individuals, GRCh38) at the level of individual participants. Use when a question is about 1.2Kskills.sh installs
10K-Dense-AI avataruncertainty-and-unitsK-Dense-AI/scientific-agent-skillsTrack physical units and propagate measurement uncertainty in scientific calculations using pint and uncertainties. Use for unit conversion and dimensional chec1.1Kskills.sh installs
11K-Dense-AI avataranalytical-method-validationK-Dense-AI/scientific-agent-skillsPlan, execute, and document validation, verification, and transfer of analytical procedures under the governing framework - ICH Q2(R2) and Q14, USP <1220>/<12251.1Kskills.sh installs
12K-Dense-AI avatariso-standards-readinessK-Dense-AI/scientific-agent-skillsPrepares and structurally reviews readiness evidence for ISO management-system and laboratory-competence standards - ISO 13485 medical device QMS, ISO 14971 dev1.1Kskills.sh installs
13K-Dense-AI avatargenomic-coordinatesK-Dense-AI/scientific-agent-skillsConvert genomic intervals between coordinate conventions, normalise and compare variant representations, and detect assembly or contig-naming mismatches before 1.1Kskills.sh installs
14K-Dense-AI avatarontology-term-resolutionK-Dense-AI/scientific-agent-skillsResolve free-text scientific labels to ontology term IDs and validate existing CURIEs against the EBI Ontology Lookup Service (OLS4). Use whenever an ontology i1.1Kskills.sh installs
15K-Dense-AI avataropenpivK-Dense-AI/scientific-agent-skillsParticle Image Velocimetry (PIV) analysis with OpenPIV. Use when extracting velocity fields from PIV image pairs, analyzing fluid dynamics or flow visualization1.1Kskills.sh installs
16K-Dense-AI avatarpathogen-variant-surveillanceK-Dense-AI/scientific-agent-skillsQuery live pathogen genomic surveillance data through the GenSpectrum LAPIS API to find which viral lineages are circulating now, how fast they are growing, and1.1Kskills.sh installs
17K-Dense-AI avatarpkpd-modelingK-Dense-AI/scientific-agent-skillsPharmacokinetic and pharmacodynamic modelling and simulation - non-compartmental analysis, compartmental and population PK, PK/PD and exposure-response, TMDD, P1.1Kskills.sh installs