This book is a collection of notes and tutorial examples written by the author while he was learning molecules and related tools. Topics include understanding atoms, bonds and molecules; introduction of atomic isotopes and elements; introduction of proteins and amino acids; introduction of protein kinases; molecule SDF (Structure Data File) format; generating PNG pictures from molecule SDF files; installing RDkit as molecule tool; visualizing molecule structure in 3-D with PyMol; generating molecule movie with PyMol. Updated in 2023 (Version v1.26) with minor updates. For latest updates and free sample chapters, visit https://www.herongyang.com/Molecule.

This book is a collection of notes and tutorial examples written by the author while he was learning molecules and related tools. Topics include understanding atoms, bonds and molecules; introduction of atomic isotopes and elements; introduction of proteins and amino acids; introduction of protein kinases; molecule SDF (Structure Data File) format; generating PNG pictures from molecule SDF files; installing RDkit as molecule tool; visualizing molecule structure in 3-D with PyMol; generating molecule movie with PyMol. Updated in 2023 (Version v1.26) with minor updates. For latest updates and free sample chapters, visit https://www.herongyang.com/Molecule.

This book is a collection of notes and tutorial examples written by the author while he was learning cheminformatics and related tools. Topics include SMILES (Simplified Molecular-Input Line-Entry System) specifications; Open Babel chemical toolbox for file format conversion; Fingerprint index files used by Open Babel for fast search; RDKit for cheminformatics and machine learning; Substructure search and decomposition with RDKit; RDKit performance on large molecule datasets; AlphaFold as an AI system to predict protein’s 3D structure. Updated in 2023 (Version v1.24) with minor updates. For latest updates and free sample chapters, visit https://www.herongyang.com/Cheminformatics.

This tutorial book is a collection of notes and sample codes written by the author while he was learning HTML himself. Topics include HTML5 and HTML 4.01 standards; HTML document structure; HTML element and attribute syntax; embedding SVG to generate graphics; embedding JavaScript code; adding (CSS Cascading Style Sheets) for display format; displayed and printed versions of HTML documents; responsive design of Web pages; MathML integration in HTML documents. Updated in 2023 (Version v2.30) on MathML tutorials. For latest updates and free sample chapters, visit https://www.herongyang.com/HTML.

This book is a collection of notes and sample codes written by the author while he was learning macOS. Topics include Macintosh OS history; macOS basic functionalities; storage file systems; reviewing resource usage on running processes; installing productivity and programming tools; installing Java and related tools; installing Apache Web server and MySQL database server; using Keychain Access to manage passwords and certificates. Updated in 2023 (Version v3.07) with minor changes. For latest updates and free sample chapters, visit https://www.herongyang.com/Mac.

This book is a collection of tutorial notes and sample codes written by the author while he was learning JVM GC (Garbage Collection) processes. Topics include Java Garbage Collectors, STW (Stop-The-World), Serial Collector, Parallel Collector, Concurrent Collector, G1 Collector, GC Algorithms, Generational GC, Regional GC, Heap Memory Management, Young/New Generation, Tenured/Old Generation, Object Reference, Eden Space, Survivor Spaces, Minor GC, Major GC, Full GC, Performance Tuning, Throughput/Latency Performance, Heap Footprint. Updated in 2022 (Version v1.11) with JVM 17. For latest updates and free sample chapters, visit https://www.herongyang.com/Java-GC.

This book is a collection of notes and sample codes written by the author while he was learning Android system. Topics include Installing of Android SDK on Windows, Creating and running Android emulators, Developing First Android Application - HelloAndroid, Creating Android Project with 'android' Command, Building, Installing and Running the Debug Binary Package, Inspecting Android Application Package (APK) Files, Using Android Debug Bridge (adb) Tool, Copying files from and to Android device, Understanding Android File Systems, Using Android Java class libraries, Using 'adb logcat' Command for Debugging. Updated in 2023 (Version v3.05) with ADB tutorials. For latest updates and free sample chapters, visit https://www.herongyang.com/Android.