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awesome-bioinformatics

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A curated list of awesome Bioinformatics databases, softwares, libraries, toolboxes, pipelines, books, courses, tutorials and more.

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awesome-bioinformatics
======================

A curated list of awesome Bioinformatics databases, softwares, libraries, toolboxes, pipelines, books, courses, tutorials and more. If you just want a software list maybe wikipedia is better : http://en.wikipedia.org/wiki/List_of_sequence_alignment_software .

More silimar or related awesome list:
* https://github.com/danielecook/Awesome-Bioinformatics  A curated list of awesome Bioinformatics libraries and software.
* https://github.com/shenwei356/awesome Awesome resources on Bioinformatics, data science, machine learning, programming language (Python, Golang, R, Perl) and miscellaneous stuff.  (Parts of them are in Chinese)
* https://github.com/j-andrews7/awesome-bioinformatics-benchmarks  Focus on benchmarks .
  
**TODO:** Need your contribution. **WELCOME** your pull !

--

## Database & Open Data
- human,animal, plant

- genotype , phenotype , SNP, protein

## Software & library 
### sequence analysis

### alignment

### assembly

### visualization
* Circos http://circos.ca

### Programming

#### R, BioConductor

#### Python
* biopython

#### Perl
* Bioconductor
* BioPerl
* Circos http://circos.ca

#### Java

#### C & C++

## Service & Open API
* [EBI services](http://www.ebi.ac.uk/services) 
* [Amazon Genomics API](http://aws.amazon.com/genomics)
* [Google Genomics API](http://cloud.google.com/genomics)
* [DNAnexus API ](https://wiki.dnanexus.com/Home)
* [23andme open API](https://api.23andme.com)

## Toolbox & Pipeline 
* TODO

## Book & Course & Tutorial & Blog
### Books
- [Lewin's GENES XI](http://www.amazon.com/Lewins-GENES-XI-Jocelyn-Krebs/dp/1449659853)

### MOOC from Coursera
- [Introduction to Bioinformatics](https://www.coursera.org/course/bioinfo) (Saint Petersburg State University)
- [Bioinformatics: Life Sciences on Your Computer ](https://www.coursera.org/course/bioinform) (Johns Hopkins University)
- [Bioinformatics: Introduction and Methods ](https://www.coursera.org/course/pkubioinfo) (Peking University)
- [Mathematical Biostatistics Boot Camp 1 ](https://www.coursera.org/course/biostats) (Johns Hopkins University)
- [Mathematical Biostatistics Boot Camp 2 ](https://www.coursera.org/course/biostats2) (Johns Hopkins University)
- [Computational Molecular Evolution ](https://www.coursera.org/course/molevol) (Technical University of Denmark (DTU))

### MOOC from edX
- [Data analysis for genomics](https://www.edx.org/course/statistics-r-life-sciences-harvardx-ph525-1x) (HarvardX)

* PH525.1x: Statistics and R for the Life Sciences 
    * PH525.2x: Introduction to Linear Models and Matrix Algebra 
    * PH525.3x: Advanced Statistics for the Life Sciences 
    * PH525.4x: Introduction to Bioconductor 
    * PH525.5x: Case study: RNA-seq data analysis 
    * PH525.6x: Case study: Variant Discovery and Genotyping 
    * PH525.7x: Case study: ChIP-seq data analysis 
    * PH525.8x: Case study: DNA methylation data analysis

### Blog

## Famous Labs & Teams

## Contributors 
Welcome your contribution.

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