de-ai-writer
de-ai-writer
Chinese AI-smell removal engine: 35 Chinese AI-tell patterns (赋能/闭环), AI-smell scoring, de-AI rewriting, style clone. Use when a Chinese draft reads machine-written or the user asks 去AI味.
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fal-image-edit
fal-image-edit
AI-powered image editing with style transfer and object removal
datanalysis-credit-risk
datanalysis-credit-risk
Credit risk data cleaning and variable screening pipeline for pre-loan modeling. Use when working with raw credit data that needs quality assessment, missing value analysis, or variable selection before modeling. it covers data loading and formatting, abnormal period filtering, missing rate calculation, high-missing variable removal,low-IV variable filteri…
macos-golden-gate-design
macos-golden-gate-design
Design, implement, review, or refactor native macOS 27 Golden Gate interfaces in SwiftUI or AppKit. Use when a Mac app must match Apple's current macOS 27 UI kit and restrained Liquid Glass language: integrated windows, full-height sidebars, native toolbars, flat lists, tables, and forms, clear pane boundaries, accessible materials, and removal of unnecessa…
react19-test-patterns
react19-test-patterns
Provides before/after patterns for migrating test files to React 19 compatibility, including act() imports, Simulate removal, and StrictMode call count changes.
agents-build
agents-build
Use to extend an existing agent project with memory, app integration, VPC, multi-agent, migration, model, browser, code interpreter, payments, or resource removal. Triggers: "add memory", "remember across sessions", "call agent from app", "invoke agent from code", "agent auth", "streaming", "VPC", "VPC connectivity", "can't reach from VPC", "multi-agent", "…
wastewater-optimization
wastewater-optimization
Specialized skill for biological and physical-chemical wastewater treatment process optimization with activated sludge modeling, nutrient removal, aeration efficiency, and energy minimization.
bio-atac-seq-consensus-peakset
bio-atac-seq-consensus-peakset
Build a differential-ready consensus peakset from per-replicate ATAC-seq peaks using iterative overlap removal, fixed-width re-centering, and majority-rule overlap. Use when generating a stable peak coordinate system for downstream differential accessibility, ML feature engineering, cross-sample comparison, or fixed-width peak counts; covers Corces 2018 ite…
bio-flow-cytometry-cytometry-qc
bio-flow-cytometry-cytometry-qc
Quality control for flow, spectral, and mass cytometry - time-based anomaly cleaning (flowAI, flowCut, PeacoQC, flowClean), margin/boundary event removal, signal-drift detection, dead-cell exclusion, CyTOF Gaussian/DNA/event-length checks, instrument calibration/standardization (MESF, CS&T, peak-2), and batch-level outlier flagging. Use when assessing acqui…
bio-imaging-mass-cytometry-data-preprocessing
bio-imaging-mass-cytometry-data-preprocessing
Load and preprocess imaging mass cytometry (IMC) and MIBI data from raw MCD/TXT through hot-pixel removal, spillover compensation, and variance-stabilizing transformation, covering readimc/steinbock ingestion, NNLS spillover compensation (CATALYST), IMC-Denoise, and the IMC arcsinh-cofactor question. Use when starting analysis from raw MCD files, building p…
bio-read-qc-fastp-workflow
bio-read-qc-fastp-workflow
Runs all-in-one FASTQ preprocessing with fastp in a single pass - adapter trimming via paired-end overlap analysis, quality/length filtering, 2-color poly-G removal, base correction, optional dedup/UMI/merge, and HTML/JSON reports. Use when preprocessing bulk Illumina data and wanting one fast tool instead of separate Cutadapt, Trimmomatic, and FastQC steps…
bio-read-qc-quality-filtering
bio-read-qc-quality-filtering
Filters reads by quality, length, N content, and complexity with Trimmomatic, fastp, and Cutadapt, including sliding-window trimming, per-read unqualified-base filtering, and 2-color poly-G removal. Use when reads have poor-quality tails, when an assembly or k-mer workflow needs clean input, or when a junk read subpopulation must be dropped. For adapter rem…
bio-workflows-atacseq-pipeline
bio-workflows-atacseq-pipeline
Orchestrates the end-to-end bulk ATAC-seq pipeline from FASTQ to differential accessibility and TF footprints, chaining Nextera-aware fastp QC, Bowtie2 alignment, chrM removal, dedup, a single Tn5 +4/-5 shift, MACS3 peak calling, Corces fixed-width consensus, DiffBind/csaw differential accessibility, and TOBIAS footprinting. Use when committing the referenc…
bio-workflows-chipseq-pipeline
bio-workflows-chipseq-pipeline
Orchestrates the end-to-end ChIP-seq pipeline from FASTQ to blacklist-filtered, annotated peaks, chaining fastp QC, Bowtie2 alignment, pre-dedup library-complexity QC (NRF/PBC), duplicate removal, chrM + ENCODE-blacklist filtering, MACS3 peak calling against a matched input, IDR/consensus reproducibility, deepTools signal tracks, and ChIPseeker annotation. …
bio-workflows-cytometry-pipeline
bio-workflows-cytometry-pipeline
End-to-end flow, spectral, and mass cytometry (CyTOF) pipeline from raw FCS files to differentially abundant/expressed cell populations. Orchestrates the read -> compensate/unmix -> transform -> QC -> doublet-removal -> cluster-or-gate -> annotate -> diffcyt DA/DS chain with flowCore/CATALYST/diffcyt, branching on instrument type and on clustering-vs-gating…
bio-workflows-edna-pipeline
bio-workflows-edna-pipeline
End-to-end eDNA metabarcoding from raw amplicons to community ecology. Covers QC, primer removal (mandatory before DADA2 filterAndTrim), denoising with OBITools3 v3 (obi stats plural; DMS-based) or DADA2 ASVs (Callahan 2017), decontam combined method as screening-not-classifier (Davis 2018), tag-jumping (Schnell 2015) with a platform-dependent baseline (Nov…
bio-workflows-microbiome-pipeline
bio-workflows-microbiome-pipeline
End-to-end 16S/ITS amplicon workflow from demultiplexed FASTQ to a consensus differential-abundance result, orchestrating cutadapt primer removal, per-run DADA2 ASV inference (learnErrors/mergeSequenceTables/removeBimeraDenovo), region-matched taxonomy assignment, a SEPP/Greengenes2 tree, alpha/beta diversity at a declared sampling depth (phyloseq/vegan, ad…
bio-workflows-scrnaseq-pipeline
bio-workflows-scrnaseq-pipeline
Orchestrates the end-to-end single-cell RNA-seq pipeline from 10x Cell Ranger output to annotated cell types, chaining ambient-RNA removal, doublet detection, MAD-adaptive QC, normalization, integration, clustering, marker annotation, and (separately) pseudobulk DE + differential abundance. Use when honoring the made-once counting commitments (reference bui…
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