「aria」の検索結果

Methods to infer clonal tree configuration for a population of cells using single-cell RNA-seq data (scRNA-seq), and possibly other data modalities. Methods are also provided to assign cells to inferred clones and explore differences in gene expression between clones. These methods can flexibly integrate information from imperfect clonal trees inferred based on bulk exome-seq data, and sparse variant alleles expressed in scRNA-seq data. A flexible beta-binomial error model that accounts for stoc

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Implements a variety of methods for batch correction of single-cell (RNA sequencing) data. This includes methods based on detecting mutually nearest neighbors, as well as several efficient variants of linear regression of the log-expression

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ASURAT is a software for single-cell data analysis. Using ASURAT, one can simultaneously perform unsupervised clustering and biological interpretation in terms of cell type, disease, biological process, and signaling pathway activity. Inputting a single-cell RNA-seq data and knowledge-based databases, such as Cell Ontology, Gene Ontology, KEGG, etc., ASURAT transforms gene expression tables into original multivariate tables, termed sign-by-sample matrices (SSMs).

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Generate SuperSigs (supervised mutational signatures) from single nucleotide variants in the cancer genome. Functions included in the package allow the user to learn supervised mutational signatures from their data and apply them to new data. The methodology is based on the one described in Afsari (2021, ELife).

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This package provides an interface to the 'samtools', 'bcftools', and 'tabix' utilities for manipulating SAM (Sequence Alignment / Map), FASTA, binary variant call (BCF) and compressed indexed tab-delimited (tabix) files.

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Dirichlet-multinomial mixture models can be used to describe variability in microbial metagenomic data. This package is an interface to code originally made available by Holmes, Harris, and Quince, 2012, PLoS ONE 7(2): 1-15, as discussed fu

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MHC (major histocompatibility complex) molecules are cell surface complexes that present antigens to T cells. The repertoire of antigens presented in a given genetic background largely depends on the sequence of the encoded MHC molecules, and thus, in humans, on the highly variable HLA (human leukocyte antigen) genes of the hyperpolymorphic HLA locus. More than 28,000 different HLA alleles have been reported, with significant differences in allele frequencies between human populations worldwide

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Design or redesign frontend UI, presentations, and graphics on the Superdesign canvas with a choice of leading AI models. Use whenever the user wants to design a page, feature, flow, slide deck, or brand-new product; improve or reproduce existing UI; compare design results across top models; explore visual variants; set or extract a design system; build reusable components or multi-page flows; create presentations; or create posters and marketing graphics, even if they never say the word 'design tool'. Also supports generating supporting image or video assets when a design needs them.

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Create new skills, modify and improve existing skills, and measure skill performance. Use when users want to create a skill from scratch, edit, or optimize an existing skill, run evals to test a skill, benchmark skill performance with variance analysis, or optimize a skill's description for better triggering accuracy.

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Turn any skill in this instance into a publish-ready launch article - proof-stat headline, one contrarian thesis, mechanics, war stories from real run history, a mental-model reframe, and the full SKILL.md embedded verbatim so readers can steal it. Optional Higgsfield title banner with --banner.

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Evolve a skill by generating variations, evaluating them, and updating the best version

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Turns the raw company-name string on a lead row into the short human form a person would say out loud, so it can be dropped into email copy. Triggers on "clean these company names", "company name variable", "strip the LLC and Inc", "the company names look robotic", "normalize company names for the campaign". Outputs company_clean, one short string per row.

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Turns the raw first-name field on a lead row into the name a person would actually be greeted by, so it can open an email. Triggers on "clean these first names", "first name variable", "the greeting says Hi DR MATTHEW", "strip the titles off the names", "some rows have the whole name in the first-name column", "normalize first names for the campaign". Outputs first_name_clean, one short string per row.

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Reusable approval-loop pattern for fanning out lead personalization across parallel Claude Code Task sub-agents. Shows the user 1 sample personalization, collects feedback, runs 10 more, approves, runs 10 more — stops when 2 consecutive rounds have zero edits, then scales to the full list. ALWAYS uses Claude Code Task tool sub-agents — never an external Anthropic/OpenAI API key. Use when any skill needs per-lead custom variables (situation lines, value lines, CTAs).

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Names 2 other right-fit people at the prospect's own company so an email can ask "is this you or them?" without ever naming the person being emailed. Triggers on "name two other people at the company", "who else works there", "should I be talking to someone else", "colleague name variable", "other prospects line", "wrong person CTA". Outputs other_prospects, a ready-to-drop phrase like "Jeff Barg or Rob Cook".

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Autonomous cold email campaign launcher. Takes one target company domain, scrapes their website, generates an ICP with Claude, pulls matching leads via Prospeo, enriches emails + company descriptions, personalizes each lead with parallel Claude Code Task sub-agents (A/B/C variants), and uploads as a live Smartlead campaign. Uses local JSON files for state (no database required). Use for automated daily campaign launches after you have an initial `client-profile.yaml` from /icp-onboarding. Triggers on "auto-research", "launch an automated campaign", "daily campaign", "run the research loop".

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Adversarially review a grooming spec before implementation starts. Finds hidden risks, unvalidated assumptions, and missing dependencies. Standalone entry point for the challenger agent.

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Generate high-performing headline variations across different angles. Trigger on "headlines", "hooks", "ad copy", "email subject lines".

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Review a diff against the goal spec assuming the code is BROKEN. The reviewer that lives in the maker's head always agrees with itself — this pulls review into a hostile, separate pass. Invoke after every code change before marking work done.

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Draft, audit, or minimally revise English- or Chinese-language academic prose to reduce formulaic, vacuous, mechanically repetitive, or process-leaking language while preserving claims, evidence strength, logical relations, manuscript-wide terminology identity, document-level pattern variation, and scholarly register. Use for papers, abstracts, grants, cover letters, and reviewer responses when the user asks to de-AI, humanize, audit AI-like phrasing, or rewrite text without changing meaning. English is primary; Chinese is supported. Not for detector evasion, policy circumvention, pure translation, non-academic copy, or adding facts, citations, examples, or author experiences that the source does not contain.

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Use when the user mentions GPT Image 2.0 or GPT Image 2.5, gpt-image-2, gpt-image-2.5, gpt_image_2_5, GPT-Image-2 prompts, the Flare / Sunburst variants, a transparent-background image, or wants to generate an image with GPT Image 2.0 or 2.5. Covers when to prefer GPT Image 2.5 over 2.0 (transparent background, xhigh/max quality, extra aspect ratios — from platform and OpenAI facts), the CLI-vs-MCP disagreement on gpt_image_2, the three-format prompt taxonomy (Format A structured JSON for UI mockups and layout-dense images; Format B dense cinematic prose for single-subject scenes; Format C auto-derive meta-prompt for theme-only concepts), per-format craft patterns, output conventions, the 6-item pre-delivery checklist, and cross-surface workflow context (companion static-ads-workflow.md for ad recreation; higgsfield-marketing-studio cross-surface-workflow.md §3 for ms_image / DTC Ads Higgsfield-native alternative).

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Write viral Twitter/X threads and Reddit posts with proven structures, hooks, and engagement tactics. Includes templates for story threads, listicle threads, contrarian takes, tutorials, and case studies. Can post directly to Reddit. Trigger phrases: "write a thread", "Twitter thread", "X thread", "viral thread", "thread writer", "tweetstorm", "thread template", "thread about", "turn this into a thread", "reddit post", "write a reddit post".

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Perform bulk code refactoring operations like renaming variables/functions across files, replacing patterns, and updating API calls. Use when users request renaming identifiers, replacing deprecated code patterns, updating method calls, or making consistent changes across multiple locations.

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Use when working on accessibility, a11y, WCAG, ARIA, screen readers, keyboard nav, focus order, contrast, alt text, captions, reduced motion, or target sizes; not language/culture/device (see inclusive-design).

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