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Tips
DIA (Data Independent Acquisition)
Skyline
DIA (Data Independent Acquisition)
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These tips relate to principally to Data Independent Acquisition (DIA) method of mass spectrometry.
Generating an Overlapping Window Isolation List using Skyline
Full Spectrum Demultiplexing of Overlapped DIA Windows using MSConvert
Slides Explaining Data Independent Acquisition
DIA Methods for Thermo Q Exactive
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Skyline Targeted Mass Spec Environment
Install 64-bit Skyline 23.1
Install 64-bit Skyline 23.1 Unplugged
Skyline 23.1 Administrator Install
Install 32-bit Skyline (deprecated)
Install 32-bit Skyline Unplugged
Release Notes
Tutorials
教程 (中国语文)
靶向 方法编辑
靶向方法优化
分析分类研究的数据
处理已有定量实验数据
MS1 全扫描筛选
针对 MS1 筛选的 DDA 搜索
并行反应监测 (PRM)
非数据依赖型采集
SWATH 数据分析
小分子目标
小分子方法开发与 CE 优化
小分子定量
绝对定量
自定义实时报告
iRT 保留时间预测
チュートリアル（日本語版）
ターゲットメソッドの編集
ターゲットメソッドの最適化
によるグループ研究データの処理
既存データ処理および定量実験
MS1フルスキャンフィルタ
MS1 フィルタ用 DDA 検索
併発反応モニタリング（PRM）
DIA、データ非依存性解析
SWATHデータの分析
によるターゲットメタボロミクス解析
小分子メソッド開発とCE最適化
小分子の定量化
絶対定量
カスタムレポートとライブレポート
iRT保持時間予測
Targeted Method Editing
Targeted Method Refinement
Processing Grouped Study Data
Existing and Quantitative Experiments
MS1 Full-Scan Filtering
DDA Search for MS1 Filtering
Parallel Reaction Monitoring (PRM)
Basic Data Independent Acquisition
Analysis of DIA/SWATH Data
Analysis of diaPASEF Data
Small Molecule Targets
Small Molecule Method Development and CE Optimization
Small Molecule Multidimensional Spectral Libraries
Small Molecule Quantification
Hi-Res Metabolomics
Absolute Quantification
Custom Reports
Advanced Peak Picking Models
iRT Retention Time Prediction
Collision Energy Optimization
Ion Mobility Spectrum Filtering
Spectral Library Explorer
Audit Logging
QuaSAR Quantitative Statistics
ETH Targeted Proteomics Course Tutorials
Videos
Video 1: Method Editing
Video 2: Results Analysis
Video 3: Existing & Quantitative Experiments
Video: Trailer
Webinars
YouTube Channels
Tips
Terminology Cheat Sheet
Installing Skyline
Recovering From a Broken Installation
Recovering the .sky File Extension Association
Running Skyline TeamCity Artifact Builds
Small Molecules
Automatic Precursor Isotopes
UI Modes
Adduct Descriptions and Small Molecule Labels
Getting lists of data out of Skyline
Pivot Editor
Document Grid Number and Date Formats
Skyline Lists
Result File Rules in Skyline 20.2
Hierarchical Clustering (and PCA Plots) in Skyline-daily
DIA (Data Independent Acquisition)
Generating an Overlapping Window Isolation List using Skyline
Full Spectrum Demultiplexing of Overlapped DIA Windows using MSConvert
Import OpenSWATH Results
Slides Explaining Data Independent Acquisition
DIA Methods for Thermo Q Exactive
Quantification
Normalization Methods
Batch Calibration
SureQuant and Triggered Acquisition
Surrogate Standards
How Skyline Calculates Peak Areas and Heights
Skyline System Requirements
Parallel Import Performance
Vendor-Specific Instrument Tuning Parameters
Support for Bruker TOF Instruments
SCIEX Instrument Settings
Export SRM Methods for a Thermo LTQ
Integration with Other Tools
How Skyline Builds Spectral Libraries
ID Annotations Missing with Mascot Search Results
Share Skyline Documents in Manuscripts
Sharing MS/MS Spectra with Manuscripts
Miscellaneous
ExD ion types
Peak Area Dotp Line Plot
Synchronized Integration
Skyline and Java
Skyline Protein Association
Spectrum Filters in Skyline 23.1
EncyclopeDIA Search from Skyline 23.1
Skyline Batch
Skyline File Types and Extensions
Waters SONAR Calibration
Audit Logging
Crosslinking
New in Skyline 4.1
How to Display Multiple Peptides
Ion Mobility Separation (IMS) Data
Skyline Source Code
How to build Skyline
Documentation
Users Meetings
Publications
ASMS 2012 WOA am MacLean Presentation
ASMS 2020 WOA am MacLean Presentation
Press
Awards
License Agreement
Other
How You Can Help
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3rd-Party Software
Related
Funding
Seattle Quant: A Resource for the Skyline Software Ecosystem
Dashboard
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