「alignment」の検索結果

Assesses RNA-seq data quality specifically for alternative splicing analysis. QC layers include experimental design audit (library prep, read length, depth, replicates), STAR 2-pass cohort-style alignment, junction saturation curves and discovery plateau detection, novel-vs-known junction ratio diagnostics, junction-overhang distribution, splice-site strength scoring (MaxEntScan intrinsic + SpliceAI context-aware), strandedness verification, GENCODE basic vs comprehensive choice, and rRNA contamination screening. Splicing analysis is more demanding than DGE on read length, depth, library prep, alignment strategy, and annotation choice — failures silently bias PSI estimates and inflate novel-junction false positives. Use when evaluating data suitability for splicing analysis, troubleshooting low event detection, or designing sequencing experiments where AS is a primary endpoint.

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Generate alignment statistics using samtools flagstat, stats, depth, coverage, and mosdepth. Use when assessing alignment quality, calculating coverage, or generating QC reports.

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。

Trim multiple sequence alignments using ClipKIT, trimAl, BMGE, Divvier, or HMMcleaner with mode selection guidance per downstream goal. Use when removing unreliable columns or contaminating residues before phylogenetic inference, HMM building, or selection analysis.

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Sort alignment files by coordinate or read name using samtools and pysam. Use when preparing BAM files for indexing, variant calling, or paired-end 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。

Layout structure for web interfaces, from grouping and alignment to reading order, progressive disclosure, and adaptive breakpoints. Use when structuring a page or component, spacing or aligning controls, deciding what collapses at small sizes, handling RTL layout direction, or reviewing frontend code for layout. Triggers on layout, spacing, alignment, grouping, negative space, whitespace, visual hierarchy, reading order, progressive disclosure, breakpoints, responsive layout, container queries, safe area, full-bleed, edge-to-edge, layout margins, RTL layout, logical properties.

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Simple Preference Optimization for LLM alignment. Reference-free alternative to DPO with better performance (+6.4 points on AlpacaEval 2.0). No reference model needed, more efficient than DPO. Use for preference alignment when want simpler, faster training than DPO/PPO.

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Fast tokenizers optimized for research and production. Rust-based implementation tokenizes 1GB in <20 seconds. Supports BPE, WordPiece, and Unigram algorithms. Train custom vocabularies, track alignments, handle padding/truncation. Integrates seamlessly with transformers. Use when you need high-performance tokenization or custom tokenizer training.

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。

Complete OKR & Strategy Execution system — from company vision to weekly execution. Covers goal hierarchy, OKR writing methodology, scoring rubrics, alignment cascading, KPI dashboards, review cadences, team accountability, and quarterly planning rituals. Use when setting goals, running planning cycles, tracking OKRs, building KPI dashboards, running retrospectives, or aligning team work to strategy. Trigger on: "OKR", "objectives", "key results", "goal setting", "quarterly planning", "KPIs", "strategy execution", "annual planning", "team goals", "alignment", "review cadence", "what should we focus on", "prioritize", "goal tracking", "north star metric".

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Full website audit for ICP alignment, messaging clarity, conversion optimization, and trust signals

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Perform evidence-backed impact analysis before changing code, data, interfaces, or governance documents, then compare the planned impact with the actual diff after implementation. Covers call paths, data and schema, API contracts, tests, documentation, ADRs, deployment, migration, and rollback. Use for cross-module or high-risk changes, database migrations, authentication, public interfaces, blast-radius questions, pre-change checks, and post-implementation alignment.

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Blenderのキャラクターやアニメーションを、骨格・座標・接地状態などのデータと画像で検査し、足滑り、向きの不一致、ねじれの原因と修正点を整理するスキル。

• 歩行時の足滑りや床へのめり込みの確認
• キャラクターの向きと進行方向の比較
• 別の骨格へ動きを移した後の姿勢検査

採点済みの競合情報を、市場マップや比較表、差別化の余地、優先施策を含むレポートにまとめます。経営層への報告や、チームで競争方針を決める場面に役立ちます。

• 経営層や取締役会向けの競合報告
• 完成済み競合プロフィールの統合
• 差別化の余地と競合脅威の検討

Reference-free preference alignment, simpler than DPO.

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Run the CCS Align seat's hourly breathing cycle — prove the local claude-mem worker is healthy, pull needle observations through search → timeline → get_observations, land them in a seat-owned middle cache via atomic grab → append → filter exclude-marks → replace, manage exclude marks, and walk house → project → seat rules to detect conflicts (SHADOW_HOUSE, DENY_ALLOW, DRIFT, CLOCK_HEADER) with an append-only rules-report.md. Use when asked to run CCS Align, breathe the alignment seat, refresh the middle cache, exclude or restore an observation, walk rules, check rules conflicts, or check the Worker Watch board.

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Use when the user wants to design, redesign, shape, critique, audit, polish, clarify, distill, harden, optimize, adapt, animate, colorize, extract, or otherwise improve a frontend interface. Covers websites, landing pages, dashboards, product UI, app shells, components, forms, settings, onboarding, and empty states. Handles UX review, visual hierarchy, information architecture, cognitive load, accessibility, performance, responsive behavior, theming, anti-patterns, typography, fonts, spacing, layout, alignment, color, motion, micro-interactions, UX copy, error states, edge cases, i18n, and reusable design systems or tokens. Also use for bland designs that need to become bolder or more delightful, loud designs that should become quieter, live browser iteration on UI elements, or ambitious visual effects that should feel technically extraordinary. Not for backend-only or non-UI tasks.

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。

Biological data toolkit. Sequence analysis, alignments, phylogenetic trees, diversity metrics (alpha/beta, UniFrac), ordination (PCoA), PERMANOVA, FASTA/Newick I/O, for microbiome analysis.

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Builds and analyzes phylogenetic trees using MAFFT multiple sequence alignment, IQ-TREE maximum likelihood with ModelFinder and branch support, and FastTree approximate inference. Uses ETE3 for tree summaries and visualization. Applies to homologous nucleotide or protein sequences, microbial gene trees, protein families, and cautiously interpreted dated phylogenies.

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Featurizes small molecules with Molfeat for QSAR/QSPR, chemical similarity, virtual screening, and molecular ML. Covers ECFP/MACCS fingerprints, RDKit descriptors, pharmacophores, pretrained embeddings, configuration persistence, and molecule-to-label alignment.

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Builds and audits reproducible NeuroKit2 research workflows for physiological time-series preprocessing, event/interval analysis, multimodal alignment, variability, and complexity. Use when code imports neurokit2 or needs its current APIs, schemas, and method-aware validation—not for diagnosis or device validation.

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Converts neuroscience acquisition data to Neurodata Without Borders files with NeuroConv and PyNWB, preserves metadata and timebases, checks evidence-based clock alignment, and produces schema validation, NWB Inspector findings and round-trip checks. Use for NWB conversion and synchronization of planar single-channel two-photon TIFF imaging plus timestamped behavioral position CSV; this skill does not perform spike sorting or claim tested support for arbitrary acquisition formats.

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Analyzes, manipulates, compares, annotates, and visualizes phylogenetic or other hierarchical trees with ETE 4. Supports Newick/Nexus tree I/O, topology edits and pattern matching, Robinson-Foulds comparisons, gene-tree evolutionary events and reconciliation, NCBI/GTDB taxonomy, SmartView exploration, and publication rendering. Applies to existing trees after alignment and phylogenetic inference, rather than inferring trees from raw sequences.

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Run protected AAS maintainer sweeps, PR merge batches, canonical sync, Core preview checks, and scripted releases. Use for repository maintenance, main alignment, CLI/MCP/Workbench changes, or release work; not ordinary contribution tasks.

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Upgrade the pinned Flask-AppBuilder (FAB) dependency in the Apache Airflow FAB provider (`providers/fab/`). Bumps the exact `flask-appbuilder==` pin and its mirror constant, regenerates `uv.lock`, drives the `test_fab_alignment.py` drift tripwire, reviews the vendored security-manager `override.py` against the new upstream FAB, and conditionally re-vendors static assets / DB migrations. Use when asked to "upgrade FAB", "bump flask-appbuilder", or move the FAB provider to a newer Flask-AppBuilder release.

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Design meeting rhythms, metric reporting, quarterly planning, and decision-making velocity for scaling companies. Use when decisions are slow, planning is broken, the company is growing but alignment is worse, or leadership meetings consume all time without producing decisions.

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。