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All agent skills - page 471 of 589
Every one of the 58,849 agent skills in the directory, ranked by adoption. Jump to a tool, or browse the agent skills hub.
- Bio Data Visualization Interactive VisualizationCreate interactive HTML plots with plotly and bokeh for exploratory analysis and web-based sharing of zoomable, hoverable omics visualizations.3 installs
- Bio De Edger BasicsRun differential expression on RNA-seq counts with edgeR's quasi-likelihood F-test, from DGEList creation through normalization, dispersion, and testing.3 installs
- Bio De ResultsFilter, annotate, and export differential expression results from DESeq2 or edgeR, applying significance thresholds and adding gene annotations.3 installs
- Bio Differential Expression Batch CorrectionRemove batch effects from RNA-seq data with ComBat, ComBat-Seq, limma removeBatchEffect, and SVA for unknown batch variables.3 installs
- Bio Differential Expression Timeseries DeAnalyze time-series RNA-seq data with limma voom splines, maSigPro, and ImpulseDE2 to find genes with dynamic temporal expression patterns.3 installs
- Bio Entrez LinkFind cross-references between NCBI databases with Biopython Bio.Entrez ELink, navigating from genes to proteins, sequences to publications, and related records.3 installs
- Bio Epitranscriptomics M6anet AnalysisDetect m6A modifications from Oxford Nanopore direct RNA sequencing using m6Anet, without immunoprecipitation.3 installs
- Bio Expression Matrix Counts IngestLoad gene expression count matrices from CSV, TSV, featureCounts, Salmon, kallisto, and 10X formats using pandas for downstream analysis.3 installs
- Bio Expression Matrix Gene Id MappingConvert between gene identifier systems including Ensembl, Entrez, HGNC symbols, and UniProt using biomaRt and mygene.3 installs
- Bio Expression Matrix Sparse HandlingWork with scipy sparse matrices for memory-efficient storage of single-cell or large bulk RNA-seq count data.3 installs
- Bio Format ConversionConvert between sequence file formats such as FASTA, FASTQ, GenBank, and EMBL using Biopython Bio.SeqIO.3 installs
- Bio Gatk Variant CallingCall germline SNPs and indels with GATK HaplotypeCaller following Best Practices, including GVCF cohorts, joint genotyping, and VQSR.3 installs
- Bio Genome Assembly ScaffoldingScaffold contigs into chromosome-level assemblies with Hi-C data using YaHS, 3D-DNA, and SALSA2, validated with BUSCO and contact maps.3 installs
- Bio Genome Intervals Bigwig TracksCreate and read bigWig browser tracks, convert bedGraph to bigWig, and extract signal at regions using UCSC tools and pyBigWig.3 installs
- Bio Geo DataQuery NCBI Gene Expression Omnibus (GEO) for expression datasets and link GEO series to SRA runs using Biopython Bio.Entrez.3 installs
- Bio Imaging Mass Cytometry Cell SegmentationSegment cells from multiplexed tissue images using deep learning (Cellpose, Mesmer) and classical methods to extract single-cell data from IMC or MIBI.3 installs
- Bio Imaging Mass Cytometry PhenotypingAssign cell types from marker expression in IMC data using manual gating, clustering, and automated classification with scanpy.3 installs
- Bio Longread QcQuality-control long-read sequencing data with NanoPlot, NanoStat, and chopper: generate reports and filter reads by length and quality.3 installs
- Bio Long Read Sequencing Clair3 VariantsCall germline SNPs and small indels from ONT or PacBio alignments using the deep-learning caller Clair3.3 installs
- Bio Metabolomics Statistical AnalysisRun statistical analysis on metabolomics data with univariate testing, multivariate methods (PCA, PLS-DA), and biomarker discovery using mixOmics.3 installs
- Bio Metabolomics Xcms PreprocessingPreprocess LC-MS/MS metabolomics data with the XCMS3 workflow: peak detection, retention time alignment, correspondence, and gap filling.3 installs
- Bio Methylation CallingExtract methylation calls from Bismark BAM files with bismark_methylation_extractor, generating per-cytosine CpG, CHG, and CHH reports.3 installs
- Bio Methylation Dmr DetectionDetect differentially methylated regions with methylKit tiles, bsseq BSmooth, and DMRcate across experimental conditions or cell types.3 installs
- Bio Methylation MethylkitAnalyze single-base DNA methylation with methylKit in R: import Bismark coverage files, filter, normalize, and compare samples statistically.3 installs
- Bio Paired End FastqHandle paired-end FASTQ R1/R2 files with Biopython: synchronize pairs, interleave or deinterleave, and filter paired reads.3 installs
- Bio Pathway GseaRun Gene Set Enrichment Analysis on a ranked gene list in R to find gene sets with coordinated up or down expression.3 installs
- Bio Pathway Kegg PathwaysFind KEGG metabolic and signaling pathways over-represented in a gene list using clusterProfiler in R.3 installs
- Bio Pathway WikipathwaysTest a gene list against community-curated WikiPathways using clusterProfiler enrichWP or gseWP in R.3 installs
- Bio Pdb Geometric AnalysisMeasure distances, angles, dihedrals, RMSD, and SASA on protein structures with Biopython Bio.PDB in Python.3 installs
- Bio Pdb Structure IoRead, download from RCSB, and write protein structure files in PDB, mmCIF, and MMTF formats with Biopython Bio.PDB.3 installs
- Bio Population Genetics Association TestingRun GWAS case-control and quantitative-trait association tests with covariates using PLINK 2.0 --glm.3 installs
- Bio Population Genetics Linkage DisequilibriumCalculate LD statistics (r-squared, D-prime) and prune correlated variants using PLINK and scikit-allel.3 installs
- Bio Population Genetics Plink BasicsConvert genotype file formats and apply MAF, call-rate, and HWE quality filters using PLINK 1.9 and 2.0.3 installs
- Bio Population Genetics Population StructureAnalyze population structure with PCA and ADMIXTURE ancestry analysis using PLINK and ADMIXTURE.3 installs
- Bio Population Genetics Scikit Allel AnalysisAnalyze population genetics in Python with scikit-allel: read VCF, compute allele frequencies, diversity, and PCA.3 installs
- Bio Population Genetics Selection StatisticsCompute selection statistics like Fst, Tajima's D, and iHS to detect selective sweeps using scikit-allel and vcftools.3 installs
- Bio Proteomics Dia AnalysisAnalyze DIA mass-spectrometry proteomics data with DIA-NN using library-free or library-based workflows.3 installs
- Bio Proteomics Proteomics QcAssess proteomics data quality (sample metrics, missing values, replicate correlation, batch effects) with pandas.3 installs
- Bio Proteomics QuantificationExtract protein abundances from MS data using label-free, TMT/iTRAQ, or SILAC quantification for differential analysis.3 installs
- Bio Proteomics Spectral LibrariesBuild and convert spectral libraries for DIA proteomics using DDA search results or predicted libraries.3 installs
- Bio Read Alignment Bowtie2 AlignmentAlign short reads (ChIP-seq, ATAC-seq) to a reference genome using Bowtie2 in local or end-to-end mode.3 installs
- Bio Read Alignment Bwa AlignmentAlign DNA short reads to a reference genome using bwa-mem2 with read-group tags for downstream GATK.3 installs
- Bio Read Alignment Hisat2 AlignmentAlign RNA-seq reads with the memory-efficient splice-aware aligner HISAT2 when STAR needs too much memory.3 installs
- Bio Read Alignment Star AlignmentAlign RNA-seq reads with STAR splice-aware alignment, including two-pass mode for novel splice junctions.3 installs
- Bio Read Qc Adapter TrimmingRemove sequencing adapters from FASTQ reads using Cutadapt or Trimmomatic before short-read alignment.3 installs
- Bio Read Qc Contamination ScreeningScreen FASTQ reads against multiple genomes with FastQ Screen to detect contamination or sample swaps.3 installs
- Bio Read Qc Quality FilteringFilter reads by quality, length, and N content with sliding-window trimming using Trimmomatic and fastp.3 installs
- Bio Read Qc Quality ReportsGenerate and aggregate FASTQ quality reports using FastQC and MultiQC to assess raw sequencing data.3 installs
- Bio Read Qc Umi ProcessingExtract and deduplicate reads by Unique Molecular Identifier using umi_tools for accurate molecule counting.3 installs
- Bio Reporting Figure ExportExport publication-ready figures with proper resolution, sizing, and vector output using matplotlib.3 installs
- Bio Reporting Quarto ReportsBuild reproducible scientific reports, slides, and sites with Quarto across R, Python, Julia, and Observable JS.3 installs
- Bio Restriction Enzyme SelectionSelect restriction enzymes by cut frequency, overhang, or compatible ends for cloning using Biopython Bio.Restriction.3 installs
- Bio Restriction Fragment AnalysisPredict restriction digest fragment sizes and simulate gel patterns using Biopython Bio.Restriction in Python.3 installs
- Bio Restriction MappingCreate restriction maps of enzyme cut positions on a DNA sequence using Biopython Bio.Restriction in Python.3 installs
- Bio Restriction SitesFind restriction enzyme cut sites in a DNA sequence with single enzymes or batches using Biopython Bio.Restriction.3 installs
- Bio Single Cell Multimodal IntegrationAnalyze multi-modal single-cell data (CITE-seq, Multiome) combining RNA with protein or ATAC using Seurat.3 installs
- Bio Spatial Transcriptomics Image AnalysisProcess spatial transcriptomics tissue images with Squidpy to extract features and segment cells and nuclei.3 installs
- Bio Spatial Transcriptomics Spatial CommunicationAnalyze cell-cell communication in spatial transcriptomics data by running ligand-receptor analysis with Squidpy.3 installs
- Bio Spatial Transcriptomics Spatial NeighborsBuild spatial neighbor graphs for spatial transcriptomics data using Squidpy KNN, Delaunay, or radius-based connectivity.3 installs
- Bio Structural Biology Alphafold PredictionsDownload AlphaFold predicted protein structures from the EBI database and analyze pLDDT confidence and PAE matrices.3 installs
- Bio Structural Biology Modern Structure PredictionPredict protein structures using AlphaFold3, ESMFold, Chai-1, Boltz-1, or ColabFold and compare the results.3 installs
- Bio Variant Calling Joint CallingPerform joint genotype calling across multiple samples with GATK CombineGVCFs, GenomicsDBImport, and GenotypeGVCFs.3 installs
- Bio Vcf StatisticsGenerate variant statistics, sample concordance, and quality metrics from VCF files using bcftools stats and gtcheck.3 installs
- Bio Workflow Management Nextflow PipelinesCreate scalable, containerized bioinformatics pipelines with Nextflow DSL2 supporting Docker, Singularity, and cloud execution.3 installs
- Bio Workflow Management Wdl WorkflowsCreate portable bioinformatics pipelines with Workflow Description Language using Cromwell or miniwdl engines.3 installs
- Bio Workflows Chipseq PipelineRun an end-to-end ChIP-seq workflow from FASTQ through QC, Bowtie2 alignment, MACS3 peak calling, and peak annotation.3 installs
- Bio Workflows Clip PipelineRun an end-to-end CLIP-seq analysis from FASTQ through UMI handling, alignment, peak calling, and motif enrichment.3 installs
- Bio Workflows Gwas PipelineRun an end-to-end GWAS from VCF through PLINK QC, population structure correction, and association testing.3 installs
- Bio Workflows Imc PipelineRun an end-to-end imaging mass cytometry workflow from raw acquisitions to spatial single-cell analysis with steinbock.3 installs
- Bio Workflows Metabolomics PipelineRun an end-to-end LC-MS metabolomics workflow from raw MS data through XCMS preprocessing to pathway analysis.3 installs
- Bio Workflows Methylation PipelineRun an end-to-end bisulfite sequencing workflow from FASTQ to differentially methylated regions with Bismark and methylKit.3 installs
- Bio Workflows Multiome PipelineRun an end-to-end multiome workflow for joint scRNA-seq and scATAC-seq analysis with WNN integration in Seurat/Signac.3 installs
- Bio Workflows Multi Omics PipelineRun an end-to-end multi-omics integration workflow across transcriptomics, proteomics, and metabolomics with MOFA2 and mixOmics.3 installs
- Bio Workflows Spatial PipelineRun an end-to-end spatial transcriptomics workflow for Visium/Xenium data covering preprocessing, domain detection, and visualization with Squidpy.3 installs
- Bio Workflows Tcr PipelineRun an end-to-end TCR/BCR repertoire analysis from FASTQ to clonotype diversity metrics using MiXCR and VDJtools.3 installs
- BlenderReference the Blender Python API (bpy, bmesh, mathutils, gpu) for scripting meshes, modifiers, geometry nodes, shaders, rendering, and add-on development.3 installs
- Blender Syntax OperatorsHelps with ai & agent building tasks.3 installs
- Blode UiHelps with ai & agent building tasks during AI-assisted development.3 installs
- Blog PostTurn a topic or brief into a long-form post plus social and multimedia adaptations via an 8-phase pipeline.3 installs
- Bmad Eval RunnerRun and grade a skill's artifact and trigger evals in an isolated sandbox and report results.3 installs
- Branch Readiness ChecksValidate branch readiness before push or PR using base-diff and local-change checks in Kibana.3 installs
- Brand Guidelines Generatorcreate and maintain brand style guides for consistent visual identity3 installs
- Brand Identity GeneratorHelps with ai & agent building tasks.3 installs
- Briefing NoteProduce a decision-ready 1-2 page policy briefing note in a standard government or consulting format from a topic and audience.3 installs
- Browser Automationautomate web browser interactions, scraping, testing, and workflow automation3 installs
- BrregSearch and retrieve Norwegian company data (org numbers, status, industry, location) from the official Brreg open API.3 installs
- Brutal Honesty ReviewHelps with ai & agent building tasks.3 installs
- BuffettHelps with ai & agent building tasks during AI-assisted development.3 installs
- Bug Reporting ExcellenceHelps with ai & agent building tasks.3 installs
- Building Webapp React ComponentsGuides creating and modifying React pages, components, headers, and footers in a Salesforce web app using shadcn UI and Tailwind CSS.3 installs
- BullmqHelps with ai & agent building tasks.3 installs
- BunHelps with ai & agent building tasks.3 installs
- Byted Link ReaderHelps with ai & agent building tasks.3 installs
- Byted Marketing Agent Inspiration InsightHelps with marketing & seo tasks.3 installs
- Byted Marketing Agent Trending ListHelps with marketing & seo tasks.3 installs
- Byted Podcast GenHelps with ai & agent building tasks.3 installs
- Byted Seedance Video GenerateHelps with ai & agent building tasks.3 installs
- Byted Sms SenderHelps with ai & agent building tasks.3 installs
- Byted Volcengine Rootcause AnalyzerLocalize the root cause of a fault by expanding topology and merging related alerts into ranked candidates.3 installs
- Call ClaudeHelps with ai & agent building tasks during AI-assisted development.3 installs