「sequences」の検索結果

Create an ADR documenting a technical decision: context, alternatives considered, consequences.

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Analyzes the downstream impact (blast radius) using data lineage on Google Cloud when a BigQuery table or view is broken, stale, or modified. Identifies all downstream tables, dashboards, and processes that will be affected. Use when: - Performing a blast radius or impact analysis for a BigQuery table or view. - Assessing the consequences of modifying, deleting, or pausing updates to a BigQuery asset. - Identifying downstream dependencies (tables, dashboards, processes) of a BigQuery asset. Don't use for: - General BigQuery querying or data analysis (use BigQuery-related tools instead). - Non-BigQuery assets (e.g., Cloud Storage files) unless they are part of the BigQuery lineage. - Creating or modifying lineage links directly.

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Creates programmatic video with React via Remotion — compositions, sequences, and motion graphics animated with useCurrentFrame() and rendered to MP4. USE WHEN video, animation, motion graphics, video rendering, React video, render video, animate content, make a short, create animations, video overlay, explainer video, animated explainer, content to video, programmatic video. NOT FOR static images, diagrams, or illustrations (use Art), tight-cut filler removal from raw talking-head recordings (that is video editing, not motion graphics), or audio-only podcast cleaning (use AudioEditor).

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Use when a user wants to create, write, name, place, or organize an Architecture Decision Record (ADR) in a software project — e.g. "write an ADR for choosing a database", "document this architecture decision", "set up an adr/ or decisions/ directory", "which ADR template should I use", "supersede an old ADR". Covers picking a template, naming the file, filling in context/decision/consequences, and deciding whether a decision even needs an ADR.

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State-space model with O(n) complexity vs Transformers' O(n²). 5× faster inference, million-token sequences, no KV cache. Selective SSM with hardware-aware design. Mamba-1 (d_state=16) and Mamba-2 (d_state=128, multi-head). Models 130M-2.8B on HuggingFace.

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Optimizes transformer attention with Flash Attention for 2-4x speedup and 10-20x memory reduction. Use when training/running transformers with long sequences (>512 tokens), encountering GPU memory issues with attention, or need faster inference. Supports PyTorch native SDPA, flash-attn library, H100 FP8, and sliding window attention.

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Create polished, validated architecture, workflow, sequence, data-flow, and lifecycle/state diagrams as explorable standalone HTML with inline SVG, dark/light themes, optional trace motion, and PNG/JPEG/WebP/SVG/WebM export. Accept plain-language requirements or pasted Mermaid flowchart, sequenceDiagram, and stateDiagram input; inspect repository evidence when the diagram must reflect real code. Use when the user asks to visualize system architecture, infrastructure, cloud/security/network topology, technical workflows, API call sequences, request lifecycles, data pipelines, ETL/ELT, data lineage, state machines, or to convert/beautify Mermaid.

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Comprehensive persistence tradecraft for authorized red team engagements covering Windows and Linux mechanisms. Windows techniques include registry Run/RunOnce keys, scheduled tasks, WMI event subscriptions, DLL search order hijacking, COM object hijacking, Startup folder drops, service creation, Security Support Provider (SSP) DLL injection, and Active Directory persistence (AdminSDHolder abuse, DCShadow, Golden Ticket, Silver Ticket, Skeleton Key, SID History injection). Linux techniques include cron and at jobs, systemd timers and services, SSH authorized_keys injection, shell profile backdoors (.bashrc/.bash_profile), PAM module backdoors, LD_PRELOAD hijacking, kernel module rootkits, web shells, and Git hook abuse. Provides operator-ready command sequences for SharPersist, Impacket ticketer, schtasks, sc.exe, crontab, and systemctl with OPSEC considerations for each method. Maps to MITRE ATT&CK T1547 (Boot or Logon Autostart), T1053 (Scheduled Task/Job), T1546 (Event Triggered Execution), T1556 (Modify Authentication Process), and sub-techniques. Includes detection indicators and a rapid engagement cheatsheet.

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Comprehensive lateral movement tradecraft for authorized red team engagements covering credential-based movement (pass-the-hash, pass-the-ticket, overpass-the-hash), NTLM relay attacks (ntlmrelayx with PetitPotam, DFSCoerce, PrinterBug coercion), remote execution protocols (WMI, WinRM, DCOM, PsExec and alternatives), RDP session hijacking, and network pivoting through tunneling tools (chisel, ligolo-ng, SSH tunnels, SOCKS proxies). Provides operator-ready command sequences for mimikatz, crackmapexec/netexec, impacket suite, and evil-winrm with emphasis on OPSEC considerations, SMB signing bypass, and detection evasion. Maps to MITRE ATT&CK T1021 (Remote Services), T1550 (Use Alternate Authentication Material), and sub-techniques. Includes defender-perspective detection guidance for blue team awareness and a rapid engagement cheatsheet for common lateral movement scenarios encountered during internal penetration tests and assumed-breach exercises.

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Submit, poll, and summarize NCBI BLAST Common URL API jobs (Blast.cgi) for nucleotide or protein sequences. Use when a user wants RID status, BLAST results, or compact top-hit summaries; fetch raw Text/JSON2 only on request.

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When the user wants to build an AI-powered outreach system, write cold emails, improve deliverability, or scale personalized outreach. Also use when the user mentions 'cold email,' 'cold outreach,' 'outreach automation,' 'Instantly,' 'Smartlead,' 'Clay,' 'email sequences,' 'deliverability,' 'personalization at scale,' 'reply rate,' or 'outreach stack.' This skill covers the complete AI cold outreach system from signal detection through conversion. Do NOT use for technical implementation, code review, or software architecture.

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Build reversible scroll-controlled visual transformations with a pinned or sticky stage, normalized progress, and video, image-sequence, canvas, SVG, or DOM renderers. Use for hero transformations, product assembly, interface state walkthroughs, object rotation, diagrams, or photo sequences that must move forward and backward with native scrolling.

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Generate architecture procedurally in Three.js and film it assembling — a small geometry vocabulary that builds pagodas, castles, domes and spires from parameters instead of mesh files, hip roofs with flying eaves driven by a single profile function, and a clipping-plane build animation where everything below a rising line is finished work and scaffolding stands above it. Use for construction studies, architectural title sequences, procedural landmarks, or any hero object that should build itself rather than fade in.

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Inverse-fold a protein backbone (PDB structure) into amino-acid sequence with ProteinMPNN (Dauparas et al. 2022, github.com/dauparas/ProteinMPNN). Reach for this skill to run sequence design on RFdiffusion backbones, to redesign one chain of a PDB while holding interface residues fixed, or to generate a temperature-swept set of sequences for downstream folding.

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Predict protein structure for monomers and multimers with AlphaFold2 via the ColabFold runner (Mirdita et al. 2022, github.com/sokrypton/ColabFold; AlphaFold2 Jumper et al. 2021). Reach for this skill to fold a sequence or complex with the AF2/AF2-Multimer evoformer, to validate designed sequences by self-consistency pLDDT, ipTM, and RMSD, or to run a quick MSA-backed prediction using the public MMseqs2 server.

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Score, embed, and generate DNA sequences with Evo 2, a long-context genomic foundation model. Use this skill when: (1) Computing per-nucleotide or per-sequence likelihoods for variant effect scoring, (2) Embedding genomic windows for downstream classification, (3) Generating DNA conditioned on a prefix, (4) Scoring regulatory or coding regions across species.

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Inverse-fold a backbone with SolubleMPNN — ProteinMPNN retrained on a soluble-PDB subset (Dauparas et al. 2022) — for sequences biased toward cytosolic expression and reduced aggregation. Reach for this skill when designs from vanilla ProteinMPNN are aggregating or going to inclusion bodies, when redesigning a membrane-adjacent fold for soluble expression, or when an E. coli expression screen is the next step.

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Records an architecture decision as a Nygard/MADR-shaped ADR under decisions/ — capturing the context that forced the choice, the options weighed, the decision itself, and its consequences in both directions, plus the supersedes chain that keeps a decision log honest. Read when asked to record an architecture decision, write an ADR, log the decision we made, document why we chose X over Y, capture this decision for the record, or supersede an old decision with a new one. Do NOT read to frame a proposal or explore an idea not yet decided (frame-a-proposal), to write a spec or implementation plan (write-a-spec), to write an incident postmortem (write-a-postmortem), or to judge whether a design is sound (review-a-design). This skill records a decision already made; it does not make one.

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Access European Nucleotide Archive via API/FTP. Retrieve DNA/RNA sequences, raw reads (FASTQ), genome assemblies by accession, for genomics and bioinformatics pipelines. Supports multiple formats.

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Cloud laboratory platform for automated protein testing and validation. Use when designing proteins and needing experimental validation including binding assays, expression testing, thermostability measurements, enzyme activity assays, or protein sequence optimization. Also use for submitting experiments via API, tracking experiment status, downloading results, optimizing protein sequences for better expression using computational tools (NetSolP, SoluProt, SolubleMPNN, ESM), or managing protein design workflows with wet-lab validation.

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Agent guide for operating Sequenzy. Use when Codex needs to authenticate, inspect identity, manage subscribers, create or edit campaigns/sequences/templates, generate draft email content, send a transactional email, read delivery stats, or decide whether a requested Sequenzy workflow is currently supported. Prefer the CLI when it is implemented, and fall back to the dashboard or direct API use when the current CLI surface is only partial.

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Validate and use packed sequences and long-context training in Megatron-Bridge, including offline LLM packing, collate-time VLM packing, Energon online packing, and CP constraints.

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Generate multiple sequence alignments (MSAs) for protein sequences using the ColabFold MSA-Search NIM. Use for homolog search, UniRef30/ColabFold env searches, A3M or FASTA alignments, paired MSA search for complexes, PDB70 structural templates, hosted NVIDIA API calls, or local Docker deployment. For local deployment, download the databases in parallel with aria2c and launch via NIM_MODEL_NAME (the recommended default fast path, ~14 min vs over 80 min for the built-in downloader); a plain docker run uses the slow built-in downloader.

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NOTE: your protein sequence and the retrieved MSA alignment are transmitted to external NVIDIA-hosted APIs (health.api.nvidia.com) on every call. Use local NIM containers for confidential or proprietary sequences. Run a complete protein structure prediction pipeline using NVIDIA BioNeMo NIMs: search for MSA alignments with MSA-Search (ColabFold), then predict the structure with OpenFold3 using the retrieved alignments. Use this skill whenever the user wants to predict a protein structure with maximum accuracy using MSA context, run the full AlphaFold3-style pipeline, generate MSA-informed structure predictions, or improve structure prediction accuracy by providing evolutionary information. Triggers on: MSA structure prediction pipeline, structure prediction pipeline, MSA-informed prediction, OpenFold3, ColabFold MSA, AlphaFold3 pipeline, protein structure, homology search, a3m alignment, UniRef30, NIM microservice. This pipeline chains MSA-Search and OpenFold3.

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