Golang for bioinformatics

About Golang

Wikipedia

Open source programming language created at Google in 2007 by Robert Griesemer, Rob Pike, and Ken Thompson. It is a compiled, statically typed language in the tradition of Algol and C, with garbage collection, limited structural typing, memory safety features and CSP-style concurrent programming features added

Official site: https://golang.org/

Advantages

• Easy to deploy, surports cross-compilation.

  部署简单，跨平台编译。Go编译生成各流行操作系统的二进制文件，直接运行即可，无依赖。

• High performance.

  高性能。

• Statically Typeed.

  静态类型语言。

• Concurrency of language level.

  语言级别的并发支持。

• Good language design, full tool-chains.

  关键字少，语法简单，工具链完善。

• Embedded runtime, has Garbage Collection.

  内置runtime，支持GC。

Disadvantages

• Lacking of bioinformatical libraries, you may reinvent wheels.
• To be added...

Should I learn

You should try if you

• Want to write some high-performance tools in short time.
• Want to protect your source code.
• Tired of complicated installation, deployment and configuration process.
• Tired of bewildering symbols of Perl, and slow speed of Python.
• Tired of the long compilation time and complication of C++.

You may think carefully if you

• Have no programming experience.
• Want to write tools with GUI.

Try

• A Tour of Go

Discussions

Golang in Bioinformatcis

• Why are 'Cool Kids' at Github Moving to GO Language?
• Learning golang for bioinformatics
• Question: Bioinformatics Tutorials Utilizing The Go ( Of Google Fame ) Programming Language

Golang

• What are the advantages and disadvantages of Go programming language?
• A Closer Look at Golang From an Architect’s Perspective
• 为什么要使用 Go 语言？Go 语言的优势在哪里？

Books

• GoBooks - List of Golang books
• An Introduction to Programming in Go

Talks

• GoTalks
• Go talks

Tools

Libraries

• biogo - biogo is a bioinformatics library for Go
• bio - A lightweight and high-performance bioinformatics package in Go
• irelate - Streaming relation (overlap, distance, KNN) of (any number of) sorted genomic interval sets. #golang
• hts - biogo high throughput sequencing repository
• cfgo - a golang library to read, write and manipulate files in the variant call format.

Tools

• vcfanno - annotate a VCF with other VCFs/BEDs/tabixed files
• SeqKit - A cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang http://shenwei356.github.io/seqkit
• gsort - sort genomic data
• fastcov - A novel algorithm for detecting multiple covariance and clustering of biological sequences

Others

• awesome-go - A curated list of awesome Go frameworks, libraries and software http://awesome-go.com/
• shenwei356's awesome-go