Docs & Writing

holobiomicslab Skill

Use when you have claims in a paper or tool documentation that one peak picking method outperforms others (e.g., 'IDSL.IPA outperforms MZmine 2 and xcms'), but the specific comparison metrics, numerical results, and source tables are not provided in the abstract or introduction.

netvar1337 Bundle

EasyAntiCheat_EOS.exe / usermode telemetry RE: modules, IPC to driver, heartbeats, report formats, packing.

netvar1337 Skill

Use when planning, triaging, packaging, or submitting vulnerability research to Trend Micro Zero Day Initiative (ZDI). Encodes official submission criteria, valuation factors, disclosure timelines, exclusivity rules, current product-interest suspensions, report quality bar, and portal workflow. Pair with zero-day-target-eligibility before investing in a target.

holobiomicslab Skill

Use when you need to verify the scope and completeness of a software platform's analytical capabilities—particularly when the project claims to support multiple input modalities (e.

holobiomicslab Skill

Use when when training Word2Vec embeddings on mass spectra represented as peak-word documents, and you need to preserve the quantitative intensity relationships between fragments without allowing a single dominant peak to overwhelm the learned word associations.

intense-visions Bundle

Design Documentation

jiayaoqijia Bundle

This skill should be used when the user asks to 'find a token', 'search for a token', 'look up PEPE', 'what's trending', 'top tokens', 'trending tokens on Solana', 'token rankings', 'who holds this token', 'holder distribution', 'token market cap', 'token liquidity', 'research a token', 'tell me about this token', 'token info', or mentions searching for tokens, discovering trending tokens, viewing rankings, checking holder distribution, or analyzing market cap and liquidity. Covers token search, metadata, market cap, liquidity, volume, trending rankings, and holder analysis across XLayer, Solana, Ethereum, Base, BSC, Arbitrum, Polygon, and 20+ other chains. Do NOT use when the user says only a generic word like 'tokens' without a specific token name or action. For price charts, K-line, trades, or signals use okx-dex-market. For meme token safety, dev reputation, rug pulls, or bundle/sniper detection use okx-dex-market.

jiayaoqijia Bundle

Auto-generate API reference documentation from Python code.

jiayaoqijia Bundle

Morning market + portfolio briefing — prices, positions, P&L, overnight orders — as a single structured report.

jiayaoqijia Bundle

Description

jiayaoqijia Bundle

Use this skill to 'swap tokens', 'trade OKB for USDC', 'buy tokens', 'sell tokens', 'exchange crypto', 'convert tokens', 'swap SOL for USDC', 'get a swap quote', 'execute a trade', 'find the best swap route', 'cheapest way to swap', 'optimal swap', 'compare swap rates', '换币', '买币', '卖币', '兑换', '交易', '代币兑换', '最优路径', '滑点', or mentions swapping, trading, buying, selling, or exchanging tokens on XLayer, Solana, Ethereum, Base, BSC, Arbitrum, Polygon, or any of 20+ supported chains. Aggregates liquidity from 500+ DEX sources for optimal routing and price. Supports slippage control, price impact protection, and cross-DEX route optimization. Do NOT use for questions about HOW TO implement, code, or integrate swaps into an application — only for actually executing swap operations. Do NOT use for analytical questions about historical swap volume. Do NOT use when the user says only a single word like 'swap' or 'trade' without specifying tokens, amounts, or any other context.

jiayaoqijia Bundle

Generate a daily profit and loss summary from trades and balances.

jiayaoqijia Bundle

Generate an Acceptance Criteria (AC) live Confluence doc for a Jira epic, following the Assets team's standard structure (Overview, Documentation table, Testing Scenarios table with Given/When/Then criteria and QA sign-off checkboxes), then link it from the epic and its stories. Use this whenever the user asks to create acceptance criteria, ACs, an "AC doc", testing scenarios, or QA sign-off criteria for an epic or feature — even if they only paste a Jira epic link and say "create the ACs for this". Also use it when asked to update or regenerate an existing "<EPIC-KEY> - ACs" Confluence page.

jiayaoqijia Bundle

Use this skill to 'broadcast transaction', 'send tx', 'estimate gas', 'simulate transaction', 'check tx status', 'track my transaction', 'get gas price', 'gas limit', 'broadcast signed tx', 'transaction hash confirmed on-chain', '交易哈希是否上链', '是否确认', or mentions broadcasting transactions, sending transactions on-chain, gas estimation, transaction simulation, tracking broadcast orders, or checking transaction status. Covers gas price, gas limit estimation, transaction simulation, transaction broadcasting, and order tracking across XLayer, Solana, Ethereum, Base, BSC, Arbitrum, Polygon, and 20+ other chains. Do NOT use for swap quote or execution - use okx-dex-swap instead. Do NOT use for general programming questions about transaction handling. Do NOT use when the user says only a single word like 'gas' or 'broadcast' without specifying a chain, transaction, or any other context.

theneoai Bundle

Expert Technical Writer with 12+ years producing developer documentation for APIs, SDKs, and enterprise software. Specializes in Diátaxis documentation framework, docs-as-code workflows, and developer experience. Use when: writing API documentation, creating developer guides, implementing docs-as-code pipelines, designing tutorials, conducting documentation audits, or improving developer

theneoai Bundle

Chartered Quantity Surveyor (MRICS) with 15+ years in construction cost management, contract administration, and value engineering. Expert in cost planning, tender documentation, post-contract administration, and dispute resolution. Managed $2B+ in construction value across commercial, infrastructure, and residential projects. Use when: cost estimating, quantity surveying, contract

fridrichmethod Bundle

Search 11 academic literature APIs for papers, preprints, citations, and open-access full text, and return results with reproducible provenance. Covers PubMed, PMC (full text), Europe PMC (full-text and preprint search), bioRxiv, medRxiv, arXiv, OpenAlex, Crossref, Semantic Scholar, CORE, Unpaywall. Use when searching for papers, citations, DOI/PMID/arXiv lookups, abstracts, full text, open-access PDFs, preprints, citation graphs, author publications, or any scholarly literature query. Triggers on mentions of any supported database or requests like "find papers on X", "look up this DOI", "who cites this paper", or "get me the PDF".

fridrichmethod Bundle

Builds reproducible Quarto reports, presentations, and websites across R, Python, and Julia, with correct engine selection, cache-vs-freeze semantics, native cross-references, parameters, and environment pinning. Use when creating a Quarto report of an analysis, setting up freeze for CI, or debugging cross-references, caching, or working-directory issues.

fridrichmethod Bundle

Quality control for IMC/MIBI data across pixel, channel, image, slide, and batch levels, covering Poisson-count SNR (cell-level Gaussian-mixture and empty-channel comparison), spillover-matrix QC (the three physical sources), drift and the missing EQ-bead analog, acquisition artifacts, and sample-of-origin batch effects. Use when deciding whether to keep or drop a channel, ROI, or slide, distinguishing a dim antibody from a failed one, reading a spillover matrix, or diagnosing batch-driven clustering before analysis.

fridrichmethod Bundle

Loads spatial transcriptomics data from Visium, Visium HD, Xenium, MERFISH/MERSCOPE, CosMx, Slide-seq/Curio, and Stereo-seq into AnnData or SpatialData using spatialdata-io and Squidpy. Use when deciding which platform class is in hand (imaging/in-situ vs sequencing/capture), which reader matches the platform (spatialdata_io.xenium/merscope/cosmx vs squidpy.read.visium/vizgen/nanostring), whether to work from the per-transcript molecule table (the re-segmentable source of truth) or the segmentation-derived per-cell matrix (quality-filtered, inherits all segmentation error), whether a molecule table even exists (spot platforms have none), and how to keep coordinate frames and units (pixel vs micron) registered to histology.

fridrichmethod Bundle

Identify spatially coherent tissue domains (regions like cortical layers, tumor vs stroma) in Visium, Visium HD, Xenium, MERFISH, Slide-seq, and Stereo-seq data with Squidpy, BANKSY, BayesSpace, STAGATE, and GraphST. Use when distinguishing a domain (a region with many cell types) from a cell type (one cell's identity) and a niche (local cell-type composition); choosing a domain method by tissue geometry (laminar/continuous vs high-resolution imaging vs non-contiguous); tuning the spatial-weight knob (BANKSY lambda, BayesSpace smoothing, SpaGCN histology weight, GNN graph radius) to avoid over-smoothing into blobs or under-smoothing into salt-and-pepper; choosing the number of domains k as a biological decision with k+-1 sensitivity; and reading the Yuan 2024 benchmark with the DLPFC continuous-laminar caveat.

fridrichmethod Bundle

Maps cell-cell communication and ligand-receptor co-expression in spatial transcriptomics (Visium, Xenium, MERFISH, CosMx, Slide-seq) with Squidpy ligrec, COMMOT, stLearn, CellChat-spatial, and NicheNet. Use when choosing a method by whether spatial distance is actually modeled (squidpy ligrec is space-blind cluster-permutation vs COMMOT optimal-transport is distance-aware vs stLearn neighborhood vs CellChat-spatial filter) and by secreted-vs-contact-dependent range; choosing the ligand-receptor database knowingly because it drives the result as much as the algorithm; guarding against segmentation-spillover circularity that fabricates short-range hits; treating every ligand-receptor score as a co-expression hypothesis on a confidence ladder, not validated signaling; correcting for thousands of pair-by-cell-type-pair permutation tests; and recognizing that a targeted imaging panel rarely contains the relevant ligands and receptors so a "no communication" call is uninformative.

fridrichmethod Bundle

Estimates per-spot cell type composition of spatial transcriptomics mixtures (Visium, Slide-seq, Stereo-seq) from an scRNA-seq reference with cell2location, RCTD, SPOTlight, stereoscope, SpatialDWLS, or reference-free STdeconvolve. Use when deciding whether a platform even needs deconvolution (the resolution fork -- a 55um Visium spot is a 1-10-cell MIXTURE -> deconvolve, but a Xenium/MERFISH/CosMx cell is already single -> segment instead, and running deconvolution there invents fractions that do not exist); choosing cell2location (absolute abundance) vs RCTD/SPOTlight/stereoscope/SpatialDWLS (proportions only) by output and runtime; matching the scRNA reference to tissue and condition (the reference IS the result -- a missing cell type is silently misassigned to its nearest neighbor with no error flag); and handling compositional outputs that sum to 1 with CLR/ILR rather than naive per-type t-tests.

fridrichmethod Bundle

Plots spatial transcriptomics expression, clusters, and annotations on tissue using Squidpy and Scanpy. Use when choosing the plotter and spot size by platform fork (sc.pl.spatial / sq.pl.spatial_scatter with real scalefactors and capture diameter for spot/capture data like Visium and Slide-seq, versus molecule/segmentation overlays for imaging/FOV data like Xenium, MERFISH, and CosMx); getting the histology coordinate-frame transform right (micron<->pixel, scalefactors) so points land on the image; and avoiding the honest-visualization traps where interpolation/KDE manufactures spatial pattern not in the data, oversized markers fake tissue coverage, jet and other non-uniform colormaps distort structure, and non-metric UMAP/tSNE distances are misread as spatial conclusions.

fridrichmethod Bundle

Detects contamination in sequencing reads - cross-species (FastQ Screen, Kraken2), vector/PhiX/adapter, rRNA, and same-species cross-sample/index-hopping and sample swaps (SNP fingerprints via verifyBamID2/NGSCheckMate/somalier). Use when suspecting cross-contamination, PDX host reads, microbial carry-over, or sample swaps, and to decide whether to report, filter, or align to a combined reference. For deep taxonomic profiling use metagenomics/kraken-classification.

fridrichmethod Bundle

Reconstructs single cells from sub-cellular spatial capture units (Visium HD 2um bins, Stereo-seq DNB spots, Slide-seqV2 beads) by aggregating bins UP into cells rather than deconvolving a mixture DOWN. Use when choosing a bin size and recognizing the sparsity-vs-mixture dilemma (2um bins are too sparse to cluster, but binning to 8/16um re-creates the multi-cell mixture deconvolution was meant to escape); deciding between morphology-driven cell reconstruction (Bin2cell -- StarDist/Cellpose nuclei on a registered H&E/DAPI image, then assign 2um bins to nuclei) and fixed-bin aggregation by whether a co-registered cell image exists; recognizing this as the INVERSE of deconvolution (bin UP, not mix DOWN -- this is the AMBIGUOUS regime of the resolution fork); and handling each platform (Visium HD has an image so reconstruct, Slide-seqV2 has no per-bead image so aggregate or deconvolve, Stereo-seq depends on a registered stain).

fridrichmethod Bundle

Build evidence-traceable market research reports and assumption-driven market sizing or forecast scenarios. Use for market definition, industry and customer evidence, competitive landscapes, TAM/SAM/SOM reconciliation, forecast sensitivity, and auditable report scaffolds.

fridrichmethod Bundle

Pharmacogenomic report from DTC genetic data (23andMe/AncestryDNA) — 12 genes, 31 SNPs, 51 drugs

fridrichmethod Bundle

Scientific presentations for conferences, seminars, thesis defenses, and grant pitches. Slide design, talk structure, timing, data viz for slides, QA. PowerPoint and LaTeX Beamer. For posters use latex-research-posters.

fridrichmethod Bundle

Designs and validates quantitative targeted metabolomics assays (MRM/SRM on triple-quadrupole, PRM on high-resolution instruments) to report absolute concentrations. Covers the internal-standard strategy (external cal -> global IS -> standard addition -> stable-isotope-labeled IS), weighted calibration judged by back-calculated %RE not R-squared, ion-ratio quantifier/qualifier confirmation, matrix-effect/recovery characterization, and ICH M10 method validation. Use when quantifying a closed panel of known metabolites with units, building or validating an LC-MS/MS assay, choosing an IS or calibration weighting, or judging whether a reported concentration is trustworthy. For untargeted feature detection see metabolomics/xcms-preprocessing; for group statistics see metabolomics/statistical-analysis; for flux/MID/tracing see metabolomics/isotope-tracing.

fridrichmethod Bundle

Checks whether a PCR primer PAIR amplifies only the intended target genome-wide, using pair-aware in-silico PCR (MFEprimer-3.0, UCSC isPcr, NCBI Primer-BLAST) plus a primer3-py 3'-end-stability prefilter, against the correct database. Covers why plain BLAST is the wrong tool (it scores per-primer similarity, blind to 3'-terminal anchoring and to whether the two primers form a convergent amplicon in range), why a single 3'-terminal mismatch suppresses amplification while internal mismatches are tolerated, why intron-spanning RT-qPCR is defeated by processed pseudogenes that force a GENOME search not transcriptome-only, how to read a Primer-BLAST report (empty unintended-products means none passed its filter, not none exist), and that in-silico checking reduces but never replaces empirical validation. Use when confirming specificity, screening off-target amplicons, avoiding paralog/pseudogene hits, or checking SNPs under the 3' end. Design is primer-basics; dimers primer-validation; alignment read-alignment.

fridrichmethod Bundle

Annotates VCF variants with functional consequences, population frequencies, and pathogenicity scores using bcftools annotate/csq, Ensembl VEP, SnpEff, and ANNOVAR. Use when deciding which annotation engine and version to pin, which transcript set to report on (RefSeq vs Ensembl vs MANE Select/Plus Clinical, and why VEP --pick is dangerous clinically), how to reconcile HGVS 3'-shifting with VCF left-alignment, which consequence plus NMD status governs PVS1 eligibility, which single calibrated predictor to use for PP3/BP4 (REVEL, AlphaMissense, CADD, SpliceAI deltas), or how to read gnomAD v2/v3/v4 grpmax filtering allele frequency instead of one global AF cutoff. Not for ACMG combining rules or final classification (see variant-calling/clinical-interpretation).

fridrichmethod Skill

Computational pathology toolkit for whole-slide images (WSIs): load slides, extract tiles, stain normalization, nuclear segmentation, feature extraction, and ML training. Supports H&E and multiplex. For end-to-end pipelines from raw WSIs to quantitative outputs.

fridrichmethod Bundle

Interact with Zotero reference management libraries using the pyzotero Python client. Retrieve, create, update, and delete items, collections, tags, and attachments via the Zotero Web API v3. Use this skill when working with Zotero libraries programmatically, managing bibliographic references, exporting citations, searching library contents, uploading PDF attachments, or building research automation workflows that integrate with Zotero.

fridrichmethod Bundle

Low-level plotting library for full customization. Use when you need fine-grained control over every plot element, creating novel plot types, or integrating with specific scientific workflows. Export to PNG/PDF/SVG for publication. For quick statistical plots use seaborn; for interactive plots use plotly; for publication-ready multi-panel figures with journal styling, use scientific-visualization.

26zl Bundle

Designs and documents structured incident response playbooks that define step-by-step procedures for specific incident types aligned with NIST SP 800-61r3 and SANS PICERL frameworks. Covers playbook structure, decision trees, escalation criteria, RACI matrices, and integration with SOAR platforms. Activates for requests involving IR playbook creation, incident response procedure documentation, response runbook development, or SOAR playbook design.