196 件 ・ 関連度順
概要と使いどころ
Call accessible chromatin regions from ATAC-seq BAM files using MACS3, MACS2, Genrich, or HMMRATAC. Use when identifying open chromatin from aligned ATAC-seq, choosing between point-source vs HMM peak callers, applying ENCODE-style pseudoreplicate IDR, removing blacklist regions, or fixing 501bp consensus peaks for downstream differential analysis.
日本語の概要は準備中です。原文の説明を表示しています。
Expert-level analytical chemistry knowledge. Use when working with chromatography, spectroscopy, electroanalytical methods, sample preparation, quantitative analysis, calibration, statistics, or instrumental analysis. Also use when the user mentions 'HPLC', 'GC', 'mass spectrometry', 'atomic absorption', 'ICP', 'titration', 'calibration curve', 'detection limit', 'NMR', 'chromatography', 'electrochemistry', 'sample preparation', or 'method validation'.
日本語の概要は準備中です。原文の説明を表示しています。
Banco de dados de embeddings de código aberto para aplicações de IA. Armazene embeddings e metadados, realize buscas vetoriais e full-text, filtre por metadados. API simples com 4 funções. Escala de notebooks para clusters de produção. Use para busca semântica, aplicações RAG ou recuperação de documentos. Melhor para desenvolvimento local e projetos de código aberto.
日本語の概要は準備中です。原文の説明を表示しています。
METAINFORMANT rules for directory src/metainformant/epigenome/chromatin_state. Use when editing, adding tests, or reviewing code under this path. Read the linked AGENTS.md first; use uv only, write outputs to output/, real implementations.
日本語の概要は準備中です。原文の説明を表示しています。
Open-source embedding database for AI applications. Store embeddings and metadata, perform vector and full-text search, filter by metadata. Simple 4-function API. Scales from notebooks to production clusters. Use for semantic search, RAG applications, or document retrieval. Best for local development and open-source projects.
日本語の概要は準備中です。原文の説明を表示しています。
Detects focal chromatin loops (point interactions / corner-dots) in balanced Hi-C and Micro-C contact maps and aggregates/validates a loop set. Covers de-novo calling with cooltools dots (HiCCUPS-style 4-background local enrichment with lambda-chunked FDR), chromosight (template-correlation), and Mustache (scale-space blob detection); aggregate peak analysis (APA) via cooltools pileup for confirmation; the depth/resolution prerequisite (de-novo needs ~5-10kb resolution = hundreds of millions to billions of valid pairs); consensus across callers and convergent-CTCF support as validation; and differential loops via union anchors plus chromosight quantify. Use when calling chromatin loops or dots from a cooler, deciding whether a map is deep enough to call de-novo vs running APA on known CTCF/cohesin anchors, building an aggregate peak pileup, comparing loops across conditions, or validating loop calls. For HiChIP/PLAC-seq/PCHi-C protein-anchored data use FitHiChIP/MAPS, not dots.
日本語の概要は準備中です。原文の説明を表示しています。
Identify differentially accessible chromatin regions across conditions using DiffBind, csaw, DESeq2, or edgeR. Use when comparing ATAC-seq accessibility between treatment groups, choosing between consensus-peak vs sliding-window approaches, picking the correct normalization (full library vs reads-in-peaks), correcting batch with SVA/RUVseq, or interpreting log2FC and FDR thresholds in a chromatin context.
日本語の概要は準備中です。原文の説明を表示しています。
Call accessible chromatin regions from ATAC-seq BAM files using MACS3, MACS2, Genrich, or HMMRATAC. Use when identifying open chromatin from aligned ATAC-seq, choosing between point-source vs HMM peak callers, applying ENCODE-style pseudoreplicate IDR, removing blacklist regions, or fixing 501bp consensus peaks for downstream differential analysis.
日本語の概要は準備中です。原文の説明を表示しています。
Detect allele-specific chromatin accessibility from ATAC-seq using WASP, GATK ASEReadCounter, or RASQUAL. Use when mapping cis-regulatory genetic variants from heterozygous SNPs, separating cis from trans regulation, building chromatin QTL (caQTL) maps, validating GWAS variant function with allelic imbalance, or detecting reference allele mapping bias before downstream analysis.
日本語の概要は準備中です。原文の説明を表示しています。
Detects focal chromatin loops (point interactions / corner-dots) in balanced Hi-C and Micro-C contact maps and aggregates/validates a loop set. Covers de-novo calling with cooltools dots (HiCCUPS-style 4-background local enrichment with lambda-chunked FDR), chromosight (template-correlation), and Mustache (scale-space blob detection); aggregate peak analysis (APA) via cooltools pileup for confirmation; the depth/resolution prerequisite (de-novo needs ~5-10kb resolution = hundreds of millions to billions of valid pairs); consensus across callers and convergent-CTCF support as validation; and differential loops via union anchors plus chromosight quantify. Use when calling chromatin loops or dots from a cooler, deciding whether a map is deep enough to call de-novo vs running APA on known CTCF/cohesin anchors, building an aggregate peak pileup, comparing loops across conditions, or validating loop calls. For HiChIP/PLAC-seq/PCHi-C protein-anchored data use FitHiChIP/MAPS, not dots.
日本語の概要は準備中です。原文の説明を表示しています。
Identify differentially accessible chromatin regions across conditions using DiffBind, csaw, DESeq2, or edgeR. Use when comparing ATAC-seq accessibility between treatment groups, choosing between consensus-peak vs sliding-window approaches, picking the correct normalization (full library vs reads-in-peaks), correcting batch with SVA/RUVseq, or interpreting log2FC and FDR thresholds in a chromatin context.
日本語の概要は準備中です。原文の説明を表示しています。
Detect allele-specific chromatin accessibility from ATAC-seq using WASP, GATK ASEReadCounter, or RASQUAL. Use when mapping cis-regulatory genetic variants from heterozygous SNPs, separating cis from trans regulation, building chromatin QTL (caQTL) maps, validating GWAS variant function with allelic imbalance, or detecting reference allele mapping bias before downstream analysis.
日本語の概要は準備中です。原文の説明を表示しています。
Call accessible chromatin regions from ATAC-seq BAM files using MACS3, MACS2, Genrich, or HMMRATAC. Use when identifying open chromatin from aligned ATAC-seq, choosing between point-source vs HMM peak callers, applying ENCODE-style pseudoreplicate IDR, removing blacklist regions, or fixing 501bp consensus peaks for downstream differential analysis.
日本語の概要は準備中です。原文の説明を表示しています。
Open-source embedding database for AI applications. Store embeddings and metadata, perform vector and full-text search, filter by metadata. Simple 4-function API. Scales from notebooks to production clusters. Use for semantic search, RAG applications, or document retrieval. Best for local development and open-source projects.
日本語の概要は準備中です。原文の説明を表示しています。
Implements visual regression testing with screenshot comparison, diff detection, and CI integration using Playwright or Chromatic. Use when users request "visual testing", "screenshot testing", "UI regression", "visual diff", or "Chromatic setup".
日本語の概要は準備中です。原文の説明を表示しています。
Embedding database for RAG and semantic search.
日本語の概要は準備中です。原文の説明を表示しています。
追加の学習データを用意せず、文章で指定した候補に画像を分類したり、内容に合う画像を検索したりします。画像と文章の類似度比較や、複数画像の一括処理も扱うスキルです。
音声ファイルの周波数、音量、テンポなどの特徴を画像にするスキル。複数の図を一枚に並べたり、指定区間だけを切り出して、音声の比較や合成処理の確認に使えます。
Digital glitch, chromatic offset, and data-corruption title frame for video transitions or cyberpunk heroes.
日本語の概要は準備中です。原文の説明を表示しています。
Search, install, and wire registry blocks and components into HyperFrames compositions. Use BEFORE hand-building any named visual — whenever a brief, a user, or a storyboard names a look, effect, treatment, or transition such as CRT scanlines, glitch, chromatic aberration, film grain, a shimmer sweep, a chart, a code or terminal window, a map, or a confetti burst — because roughly 400 hosted items already cover many of them and the search ranks all of them with nothing installed, no project, and no account. Also use when running hyperframes add or hyperframes catalog, installing one item or every block matching a tag, wiring an installed item into index.html, or working with hyperframes.json. Covers discovery, install locations, block sub-composition wiring, component snippet merging, and authoring a new block or component to contribute upstream (idea → scaffold → validate → PR).
日本語の概要は準備中です。原文の説明を表示しています。
Initialize a new MemPalace — guided setup for your AI memory palace with ChromaDB backend.
日本語の概要は準備中です。原文の説明を表示しています。
Predicts regulatory features, gene structure, and expression directly from DNA sequence using Genomic Intelligence's hosted transformer DNA language models — no local GPU or model weights. Six tasks over a REST API and a hosted MCP server (keyless public demo): promoter regions, splice donor/acceptor sites, enhancer activity, chromatin state, sequence-to-expression (log TPM), and de-novo gene annotation, plus a composite find-genes-then-predict-expression workflow. Use when the user has a gene symbol, a genomic region, or a DNA/FASTA sequence and wants any of these predictions, mentions Genomic Intelligence, genomicintelligence.ai, api.genomicintelligence.ai, or mcp.genomicintelligence.ai.
日本語の概要は準備中です。原文の説明を表示しています。
Looks up precomputed AlphaGenome Atlas effects for any GRCh38 single-nucleotide variant (AVI score with Phred and 18 SHAP feature attributions, plus raw and quantile scores for RNA-seq, DNase, ATAC, ChIP-TF, ChIP-histone, CAGE, PRO-cap, splicing, polyadenylation and contact-map tracks), scores variants or scans windows on demand with the AlphaGenome model for human and mouse (variant scoring, in silico mutagenesis, REF-versus-ALT track prediction), and builds Atlas website deep links. Use when the user mentions AlphaGenome, AlphaGenome Atlas, AVI or AlphaGenome Variant Impact, DeepMind variant effect prediction, or wants to prioritise or mechanistically interpret non-coding, regulatory, splicing, enhancer, promoter, or chromatin-accessibility effects of SNVs from a VCF, credible set, or region. Research use only; not a clinical tool.
日本語の概要は準備中です。原文の説明を表示しています。
Build production RAG pipelines and persistent agent memory using Pinecone as the vector database backend. ALWAYS USE THIS SKILL when the user mentions Pinecone, wants to index documents for semantic search, build a retrieval-augmented generation system, store agent memory across sessions, implement hybrid search, or connect an LLM to a searchable knowledge base — even if they don't say "Pinecone" explicitly. Also use when the user asks about vector databases for RAG, namespace isolation for multi-tenant agents, embedding pipelines, or scaling a knowledge base beyond what local storage can handle. DO NOT use for local-only vector stores (Chroma, FAISS, pgvector) or pure keyword search with no semantic component.
日本語の概要は準備中です。原文の説明を表示しています。