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Executing bin/update_index.py for the first time.
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‎README.md‎

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The content of this tutorial is available under the [CC-BY](http://creativecommons.org/licenses/by/3.0/) license.
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[view license](license.md)
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‎alignment/README.md‎

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[view license](../license.md)
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<!--automatically generated footer-->
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---
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Navigation:
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[Home](../README.md)
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| Book 2: The Alignment module
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Prev: [Book 1: The Core module](../core/README.md)
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Next: [Book 3: The Protein Structure modules](../structure/README.md)

‎alignment/installation.md‎

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on your project, the BioJava dependencies will be automatically downloaded and installed for you.
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<!--automatically generated footer-->
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---
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Navigation:
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[Home](../README.md)
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| [Book 2: The Alignment module](README.md)
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| Chapter 1 : Installation

‎core/README.md‎

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[view license](../license.md)
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<!--automatically generated footer-->
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---
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Navigation:
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[Home](../README.md)
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| Book 1: The Core module
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Next: [Book 2: The Alignment module](../alignment/README.md)

‎core/installation.md‎

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on your project, the BioJava dependencies will be automatically downloaded and installed for you.
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<!--automatically generated footer-->
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---
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Navigation:
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[Home](../README.md)
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| [Book 1: The Core module](README.md)
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| Chapter 1 : Installation

‎genomics/README.md‎

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[view license](../license.md)
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<!--automatically generated footer-->
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---
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Navigation:
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[Home](../README.md)
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| Book 4: The Genomics Module
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Prev: [Book 3: The Protein Structure modules](../structure/README.md)

‎genomics/chromosomeposition.md‎

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```
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<!--automatically generated footer-->
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---
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Navigation:
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[Home](../README.md)
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| [Book 4: The Genomics Module](README.md)
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| Chapter 3 : chromosomal positions
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Prev: [Chapter 2 : gene names information](genenames.md)
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Next: [Chapter 4 : GTF and GFF files](gff.md)

‎genomics/genebank.md‎

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// or print it out on the console
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System.out.println(fragwriter.toString());
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```
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<!--automatically generated footer-->
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---
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Navigation:
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[Home](../README.md)
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| [Book 4: The Genomics Module](README.md)
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| Chapter 5 : Genebank
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Prev: [Chapter 4 : GTF and GFF files](gff.md)
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Next: [Chapter 5 : karyotype (cytoband)](karyotype.md)

‎genomics/genenames.md‎

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GeneNamesParser.getGeneNames(inStream);
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```
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<!--automatically generated footer-->
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---
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Navigation:
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[Home](../README.md)
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| [Book 4: The Genomics Module](README.md)
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| Chapter 2 : gene names information
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Prev: [Chapter 1 : Installation](installation.md)
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Next: [Chapter 3 : chromosomal positions](chromosomeposition.md)

‎genomics/gff.md‎

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complete set of java classes to do these conversions where the list of supported gene prediction applications and
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genome browsers will get longer based on end user requests.
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<!--automatically generated footer-->
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---
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Navigation:
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[Home](../README.md)
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| [Book 4: The Genomics Module](README.md)
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| Chapter 4 : GTF and GFF files
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Prev: [Chapter 3 : chromosomal positions](chromosomeposition.md)
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Next: [Chapter 5 : Genebank](genebank.md)

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