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Clean up translation-ese and AI-writing tics in Korean prose so it reads like a person wrote it — content (facts, numbers, proper nouns, quotes) stays 100% unchanged, only style and rhythm are touched. Single-pass, done in this session. Triggers — AI 티 없애줘, 번역투 고쳐줘, 한글 자연스럽게 윤문해줘, sounds like a machine translation, remove AI tells from this Korean text, make this Korean read naturally. Not for: marketing copy generation (write it clean the first time — see rules/korean-writing-quality.md), English text, plain spell-check (see korean-spell-check), or book-length manuscripts.

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Best-practices reference for preparing and instrumenting applications on Temps. Covers the app runtime contract (`.temps.yaml` health, HOST/PORT, readiness, SIGTERM, replicas, migrations) and production observability (errors, traces, metrics, logs, analytics, privacy, sampling, cardinality, credential boundaries). Use whenever building or reviewing an app for Temps, configuring health checks, adding telemetry, diagnosing missing/noisy signals, or checking OTLP/Sentry/analytics ingestion. Triggers include "temps best practices", "prepare this app for Temps", ".temps.yaml health", "temps health check", "ignore health checks in otel", "temps observability", "wire up telemetry", and "instrument this app for temps". Prefer focused setup skills for a single SDK. Use temps-cli for executing deploy and resource-management commands.

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Implement a playbook from its PROMPT specification files. Supports both single-framework (PROMPT-REACT.md, etc.) and 3-framework (PROMPT-3-FRAMEWORKS.md) modes.

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Orchestrate multi-agent swarms with agentic-flow for parallel task execution, dynamic topology, and intelligent coordination. Use when scaling beyond single agents, implementing complex workflows, or building distributed AI systems.

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Comprehensive SEO analysis for any website, page, business, or topic. Full site audits, SEO checks, single-page analysis, technical SEO (crawlability, indexability, Core Web Vitals with INP), schema markup, content quality (E-E-A-T), image optimization, sitemap analysis, GEO for AI Overviews/ChatGPT/Perplexity, and SEO best-practice planning. Industry detection for SaaS, e-commerce, local, publishers, agencies. Triggers on: SEO, audit, full SEO check, SEO best practices, optimize my site, ranking, organic search, schema, Core Web Vitals, sitemap, E-E-A-T, AI Overviews, GEO, technical SEO, content quality, page speed, structured data.

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Revenue beyond the single-app price tag — own-app bundles, Family Sharing as a conversion lever, cross-developer bundles & suites, and institutional licensing via Group Purchases / Apple School & Business Manager. Use when a developer has multiple apps, a subscription worth sharing, complementary indie partners, or school/clinic/business buyers.

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Monocle performs differential expression and time-series analysis for single-cell expression experiments. It orders individual cells according to progress through a biological process, without knowing ahead of time which genes define progre

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A collection of tools for doing various analyses of single-cell RNA-seq gene expression data, with a focus on quality control and visualization.

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The scDblFinder package gathers various methods for the detection and handling of doublets/multiplets in single-cell sequencing data (i.e. multiple cells captured within the same droplet or reaction volume). It includes methods formerly fou

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Implements miscellaneous functions for interpretation of single-cell RNA-seq data. Methods are provided for assignment of cell cycle phase, detection of highly variable and significantly correlated genes, identification of marker genes, and

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A robust and outlier-aware method for testing differential tissue composition from single-cell data. This model can infer changes in tissue composition and heterogeneity, and can produce realistic data simulations based on any existing dataset. This model can also transfer knowledge from a large set of integrated datasets to increase accuracy further.

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SimBu can be used to simulate bulk RNA-seq datasets with known cell type fractions. You can either use your own single-cell study for the simulation or the sfaira database. Different pre-defined simulation scenarios exist, as are options to run custom simulations. Additionally, expression values can be adapted by adding an mRNA bias, which produces more biologically relevant simulations.

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Image segmentation is the process of identifying the borders of individual objects (in this case cells) within an image. This allows for the features of cells such as marker expression and morphology to be extracted, stored and analysed. simpleSeg provides functionality for user friendly, watershed based segmentation on multiplexed cellular images in R based on the intensity of user specified protein marker channels. simpleSeg can also be used for the normalization of single cell data obtained f

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Defines an S4 class for storing data from spatial -omics experiments. The class extends SingleCellExperiment to support storage and retrieval of additional information from spot-based and molecule-based platforms, including spatial coordina

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Implements low-level utilities for single-cell trajectory analysis, primarily intended for re-use inside higher-level packages. Include a function to create a cluster-level minimum spanning tree and data structures to hold pseudotime infere

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treekoR is a novel framework that aims to utilise the hierarchical nature of single cell cytometry data to find robust and interpretable associations between cell subsets and patient clinical end points. These associations are aimed to recapitulate the nested proportions prevalent in workflows inovlving manual gating, which are often overlooked in workflows using automatic clustering to identify cell populations. We developed treekoR to: Derive a hierarchical tree structure of cell clusters; qua

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SpatialFeatureExperiment (SFE) is a new S4 class for working with spatial single-cell genomics data. The voyager package implements basic exploratory spatial data analysis (ESDA) methods for SFE. Univariate methods include univariate global spatial ESDA methods such as Moran's I, permutation testing for Moran's I, and correlograms. Bivariate methods include Lee's L and cross variogram. Multivariate methods include MULTISPATI PCA and multivariate local Geary's C recently developed by Anselin. The

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The package implements a method for normalising microarray intensities from single- and multiple-color arrays. It can also be used for data from other technologies, as long as they have similar format. The method uses a robust variant of th

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Current version only works in 'merge' mode: A single table of gene summarizations is generated with one column for each sample file.

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Provides basic utility functions for performing single-cell analyses, focusing on simple normalization, quality control and data transformations. Also provides some helper functions to assist development of other packages.

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This package implements a suite of methods to preprocess data from PTR-TOF-MS instruments (HDF5 format) and generates the 'sample by features' table of peak intensities in addition to the sample and feature metadata (as a single ExpressionSet object for subsequent statistical analysis). This package also permit usefull tools for cohorts management as analyzing data progressively, visualization tools and quality control. The steps include calibration, expiration detection, peak detection and qua

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granulator is an R package for the cell type deconvolution of heterogeneous tissues based on bulk RNA-seq data or single cell RNA-seq expression profiles. The package provides a unified testing interface to rapidly run and benchmark multiple state-of-the-art deconvolution methods. Data for the deconvolution of peripheral blood mononuclear cells (PBMCs) into individual immune cell types is provided as well.

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Methods and models for handling zero-inflated single cell assay data.

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AUCell allows to identify cells with active gene sets (e.g. signatures, gene modules...) in single-cell RNA-seq data. AUCell uses the "Area Under the Curve" (AUC) to calculate whether a critical subset of the input gene set is enriched with

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