485 件 ・ 関連度順
概要と使いどころ
Use when correcting batch effects in merged bulk expression matrices with sample-level batch metadata while preserving biological group structure and generating before-and-after QC plots. NOT for: single-cell integration, raw FASTQ processing, differential expression without batch labels, or datasets without biological groups.
日本語の概要は準備中です。原文の説明を表示しています。
Decides how to preprocess plasma cfDNA sequencing data so the recoverable signal survives - library-prep-aware fragment expectations (dsDNA vs ssDNA/adaptase prep), UMI/duplex consensus with fgbio (ExtractUmisFromBam, GroupReadsByUmi --strategy paired for duplex, CallMolecularConsensusReads vs CallDuplexConsensusReads, FilterConsensusReads min-reads "total s1 s2"), the align->group->consensus->RE-align ordering, and the cfDNA dedup trap where naive coordinate dedup collapses nucleosome-coincident independent molecules. Covers when single-strand consensus suffices vs when duplex is mandatory, the singleton/sensitivity tax at low input, and reading the insert-size histogram as a pre-analytical QC instrument. Use when processing plasma cfDNA reads before fragmentomics, ctDNA mutation calling, or tumor-fraction estimation.
日本語の概要は準備中です。原文の説明を表示しています。
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 per-channel TIFF stacks, compensating channel spillover, choosing an arcsinh cofactor, or preparing single-cell intensities for phenotyping.
日本語の概要は準備中です。原文の説明を表示しています。
Aligns and QCs methylated-RNA-immunoprecipitation (MeRIP / m6A-seq) IP and input libraries using STAR or HISAT2 splice-aware mapping, samtools sort/index, IP/input matched-pair tracking, antibody-lot metadata recording, replicate concordance via deepTools multiBamSummary + plotCorrelation, IP enrichment QC via plotFingerprint and per-transcript IP/input ratio distributions, library-complexity saturation curves via PreSeq, and the explicit do-NOT-deduplicate convention for standard non-UMI MeRIP. Use when preparing paired IP and input BAM files for exomePeak2 / MeTPeak / MACS3 peak calling, evaluating MeRIP replicate concordance and IP enrichment, deciding whether to deduplicate (standard MeRIP typically NOT), choosing genome-vs-transcriptome alignment for downstream peak vs m6Anet workflows, recording antibody clone and lot metadata for cross-batch reconciliation, detecting failed IPs via saturation curves and IP/input distribution shape, or generating IP-over-Input bigWig tracks for visualisation.
日本語の概要は準備中です。原文の説明を表示しています。
Implement PCI DSS requirements for payment card data. Configure cardholder data environment and security controls. Use when processing payment cards.
日本語の概要は準備中です。原文の説明を表示しています。
Computes multi-constellation Global Positioning System (GPS) or Global Navigation Satellite System (GNSS) positions from RINEX v3 data using rinexread, gnssmeasurements, receiverposition, and gnssoptions. Filters by constellation, elevation mask, C/N0, and observation code. Reports DOP, scatter RMS, and satellite count. Use when processing GNSS data, computing positions from RINEX files, analyzing accuracy, comparing constellations, or evaluating satellite geometry. Do NOT use for carrier-phase RTK/PPP, IMU fusion, orbit propagation, NMEA streaming, or RINEX v4.
日本語の概要は準備中です。原文の説明を表示しています。
Molecular data processing, featurization, and cheminformatics workflows
日本語の概要は準備中です。原文の説明を表示しています。
Writes Spark jobs, debugs performance issues, configures cluster settings for distributed data processing, DataFrame transformations, and structured streaming analytics.
日本語の概要は準備中です。原文の説明を表示しています。
Toolkit for comprehensive Spreadsheet reading, creation, editing, and analysis with visual quality control. Use to work with spreadsheets (.xlsx, .xlsm, .csv, .tsv) for: (1) Creating new spreadsheets with formulas and formatting, (2) Reading or analyzing tabular data, (3) Modifying existing spreadsheets while preserving formulas, (4) Building financial models with proper formatting, (5) Data visualization with in-sheet charts, or any other spreadsheet tasks.
日本語の概要は準備中です。原文の説明を表示しています。
GDPR Data Protection Impact Assessment (DPIA) guidance under Article 35 GDPR, EDPB Guidelines WP 248 rev.01, EDPB Opinion 28/2024 (AI), and national SA blacklists/whitelists. Triggers: "DPIA", "DSFA", "Datenschutz-Folgenabschätzung", "impact assessment", "Art. 35", "do I need a DPIA", descriptions of new high-risk processing (profiling, AI, biometrics, large-scale monitoring, special category data), Art. 36 prior consultation questions, national blacklist/whitelist queries.
日本語の概要は準備中です。原文の説明を表示しています。
This package performs differential pattern analysis for Ribo-seq data. It identifies genes with significantly different patterns in the ribosome footprint between two conditions. RiboDiPA contains five major components including bam file processing, P-site mapping, data binning, differential pattern analysis and footprint visualization.
日本語の概要は準備中です。原文の説明を表示しています。
This package implements a metabolic network analysis pipeline to identify an active metabolic module based on high throughput data. The pipeline takes as input transcriptional and/or metabolic data and finds a metabolic subnetwork (module) most regulated between the two conditions of interest. The package further provides functions for module post-processing, annotation and visualization.
日本語の概要は準備中です。原文の説明を表示しています。
The package CellBarcode performs Cellular DNA Barcode analysis. It can handle all kinds of DNA barcodes, as long as the barcode is within a single sequencing read and has a pattern that can be matched by a regular expression. \code{CellBarcode} can handle barcodes with flexible lengths, with or without UMI (unique molecular identifier). This tool also can be used for pre-processing some amplicon data such as CRISPR gRNA screening, immune repertoire sequencing, and metagenome data.
日本語の概要は準備中です。原文の説明を表示しています。
MSnbase provides infrastructure for manipulation, processing and visualisation of mass spectrometry and proteomics data, ranging from raw to quantitative and annotated data.
日本語の概要は準備中です。原文の説明を表示しています。
MsCoreUtils defines low-level functions for mass spectrometry data and is independent of any high-level data structures. These functions include mass spectra processing functions (noise estimation, smoothing, binning, baseline estimation),
日本語の概要は準備中です。原文の説明を表示しています。
Code generator skills that produce production-ready Swift code for common app components. Use when user wants to add logging, analytics, onboarding, review prompts, networking, authentication, paywalls, settings, persistence, error monitoring, CI/CD pipelines, localization, push notifications, deep linking, testing, accessibility, widgets, feature flags, app icons, image caching, pagination, HTTP caching, share cards, social export, subscription lifecycle, referral systems, watermarks, streak tracking, milestone celebrations, what's new screens, lapsed user re-engagement, usage insights, variable rewards, consent flows, account deletion, permission priming, force updates, state restoration, debug menus, offline queues, feedback forms, announcement banners, quick win sessions, Spotlight indexing, App Clips, screenshot automation, background processing, app extensions, data export, or SwiftUI preview sample data and variant matrices.
日本語の概要は準備中です。原文の説明を表示しています。
Microscopy data management platform. Access images via Python, retrieve datasets, analyze pixels, manage ROIs/annotations, batch processing, for high-content screening and microscopy workflows.
日本語の概要は準備中です。原文の説明を表示しています。
Comprehensive biosignal processing toolkit for analyzing physiological data including ECG, EEG, EDA, RSP, PPG, EMG, and EOG signals. Use this skill when processing cardiovascular signals, brain activity, electrodermal responses, respiratory patterns, muscle activity, or eye movements. Applicable for heart rate variability analysis, event-related potentials, complexity measures, autonomic nervous system assessment, psychophysiology research, and multi-modal physiological signal integration.
日本語の概要は準備中です。原文の説明を表示しています。
Convert various file formats (PDF, Office documents, images, audio, web content, structured data) to Markdown optimized for LLM processing. Use when converting documents to markdown, extracting text from PDFs/Office files, transcribing audio, performing OCR on images, extracting YouTube transcripts, or processing batches of files. Supports 20+ formats including DOCX, XLSX, PPTX, PDF, HTML, EPUB, CSV, JSON, images with OCR, and audio with transcription.
日本語の概要は準備中です。原文の説明を表示しています。
CLI/Python toolkit for rapid bioinformatics queries. Preferred for quick BLAST searches. Access to 20+ databases: gene info (Ensembl/UniProt), AlphaFold, ARCHS4, Enrichr, OpenTargets, COSMIC, genome downloads. For advanced BLAST/batch processing, use biopython. For multi-database integration, use bioservices.
日本語の概要は準備中です。原文の説明を表示しています。
MS data processing with PyOpenMS for LC-MS/MS proteomics and metabolomics — mzML/mzXML I/O, signal processing (smoothing, peak picking, centroiding), feature detection/linking, peptide/protein ID with FDR, untargeted metabolomics. Use matchms for simple spectral matching.
日本語の概要は準備中です。原文の説明を表示しています。
Python library for healthcare ML on EHR data: process MIMIC-III/IV, eICU, OMOP-CDM; encode medical codes (ICD, ATC, NDC); build patient-level datasets; train Transformer, RETAIN, GRASP, MedBERT for mortality, drug recommendation, readmission, diagnosis prediction. Alternatives: FIDDLE (preprocessing), clinical-longformer (clinical NLP), ehr-ml (embeddings).
日本語の概要は準備中です。原文の説明を表示しています。
WSI processing for digital pathology. Tissue detection, tile extraction (random, grid, score-based), filter pipelines for H&E/IHC. For dataset prep, tile-based DL, slide QC. Use pathml for multiplexed imaging.
日本語の概要は準備中です。原文の説明を表示しています。
PDF processing for construction documents: RFIs, submittals, specifications, drawing packages. Extract data, merge packages, fill forms.
日本語の概要は準備中です。原文の説明を表示しています。