「vin」の検索結果

Infer integer allele-specific copy number, tumor purity, and ploidy from tumor sequencing by jointly modeling read depth (logR) and B-allele frequency (BAF) with ASCAT, Sequenza, FACETS, PURPLE, and PureCN (tumor-only). Covers the purity-ploidy identifiability problem, the diploid-baseline (dipLogR) anchor, major/minor copy number, loss of heterozygosity, sunrise/contour fit diagnostics, and reconciliation of conflicting fits. Use when tumor analysis needs absolute copy number rather than relative log2, when estimating purity and ploidy, calling LOH or copy-neutral LOH, resolving whole-genome doubling, running tumor-only allele-specific calling, or choosing among ASCAT, Sequenza, FACETS, and PureCN.

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Performs structure-based virtual screening using AutoDock Vina, SMINA, GNINA (CNN scoring), and DiffDock-L hybrid workflows with explicit choice rules across rigid vs flexible docking, cross-docking vs self-docking, binding-site detection (P2Rank, fpocket), receptor preparation (PDB2PQR, PROPKA), ligand preparation (meeko, OpenBabel), and ultralarge-library screening (ZINC22, Enamine REAL). Use when screening chemical libraries against a protein target to find candidate binders, ranking docking poses, or selecting a docking workflow for a specific scenario.

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Designs covalent inhibitors and warheads targeting cysteine (most common, 98% of covalent drugs), lysine, serine, threonine, tyrosine, and aspartate residues, with explicit handling of warhead reactivity (acrylamide, chloroacetamide, vinyl sulfone, sulfonyl fluoride, fluorosulfate, aldehyde, boronate, nitrile), reversibility (kinact/Ki, t_residence), glutathione (GSH) stability, intrinsic reactivity assays, and covalent docking (DOCKovalent, GOLD, HCovDock). Use when designing covalent inhibitors for targeted covalent inhibition (TCI), KRAS G12C-style approaches, or rationalizing covalent SAR.

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Enumerates virtual chemical libraries via reaction SMARTS transformations using RDKit and Reaction templates, with explicit handling of atom mapping, template extraction (RDKit reaction mining), product validation, RECAP/BRICS fragmentation, R-group decomposition, matched molecular pair analysis (MMPA), and Free-Wilson analysis. Use when generating combinatorial libraries from building blocks, enumerating analog series, deriving structure-activity rules, or extracting transformations from reaction data.

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Analyzes chemical libraries by scaffold using Bemis-Murcko scaffolds, generic frameworks, cyclic skeletons, matched molecular pair (MMP) analysis via mmpdb, R-group decomposition, Free-Wilson analysis, scaffold hopping, and chemotype-aware ML train/test splits. Use when identifying chemotype clusters in a library, deriving SAR transformation rules, decomposing series into R-groups, performing scaffold-balanced QSAR splits, or planning analog campaigns.

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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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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.

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Filter alignments by flags, mapping quality, and regions using samtools view and pysam. Use when extracting specific reads, removing low-quality alignments, or subsetting to target regions.

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Provider account and authenticator setup through Matrx Vault. Use when creating a service account, saving its login, enrolling 2FA, or verifying agent sign-in with Vault credentials.

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Strip designs to their essence by removing unnecessary complexity. Great design is simple, powerful, and clean. Use when the user asks to simplify, declutter, reduce noise, remove elements, or make a UI cleaner and more focused.

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Tones down visually aggressive or overstimulating designs, reducing intensity while preserving quality. Use when the user mentions too bold, too loud, overwhelming, aggressive, garish, or wants a calmer, more refined aesthetic.

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Reflection-first problem solving methodology for Convex development. Use before implementing any solution to ensure proper root cause analysis, 98% code confidence, and minimal change scope.

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Run convex-doctor static analysis, interpret findings, and fix issues across security, performance, correctness, schema, and architecture categories. Use when running convex-doctor, fixing convex-doctor warnings or errors, improving the convex-doctor score, or when asked about Convex code quality, static analysis, or linting Convex functions.

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Write or revise MiniMax H3 prompts for text, keyframe, and full-reference modes, preserving mode-specific fields, labels, and timing.

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Azure Queue Storage JavaScript/TypeScript SDK (@azure/storage-queue) for message queue operations. Use for sending, receiving, peeking, and deleting messages in queues.

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Use formula-backed WorkPaper JSON and MCP tools for agent spreadsheet tasks without driving Excel or a browser UI.

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Azure Key Vault Secrets SDK for Rust. Use for storing and retrieving secrets, passwords, and API keys. Triggers: "keyvault secrets rust", "SecretClient rust", "get secret rust", "set secret rust".

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Manage secrets using Azure Key Vault Secrets SDK for JavaScript (@azure/keyvault-secrets). Use when storing and retrieving application secrets or configuration values.

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Azure Key Vault Secrets Java SDK for secret management. Use when storing, retrieving, or managing passwords, API keys, connection strings, or other sensitive configuration data.

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。

Azure Event Hubs SDK for Rust. Use for sending and receiving events, streaming data ingestion.

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Optimize content for AI search and LLM citations across AI Overviews, ChatGPT, Perplexity, Claude, Gemini, and similar systems. Use when improving AI visibility, answer engine optimization, or citation readiness.

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。

Optimize multi-agent systems with coordinated profiling, workload distribution, and cost-aware orchestration. Use when improving agent performance, throughput, or reliability.

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Extract EPA/NADP tDEP atmospheric deposition and NADP precipitation chemistry rasters for an AmeriFlux or EcoSIM site. Use when deriving atmospheric chemistry inputs such as NH4, NO3, SO4, Ca, or precipitation pH for EcoSIM forcing workflows.

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Extract dominant-component soil profile variables for EcoSIM grid or template inputs from gSSURGO, with FAO HWSD v2.0 fallback when gSSURGO data are unavailable or incomplete. Use when deriving soil depth, bulk density, field capacity, wilting point, hydraulic conductivity, texture, rock fraction, pH, CEC, or soil organic carbon; or when converting EcoSIM grid NetCDF files to editable Excel workbooks and back.

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。