[Biojava-l] Reading and writting Fastq files

[xyz]

Hello,
I could create methods which can read and write fastq files.
However, I downloaded the BioJava source code and in folder
src/org/biojava/bio/program are following files:

* AbstractFastqReader.java
* AbstractFastqWriter.java
* Fastq.java
* FastqBuilder.java
* FastqReader.java
* FastqVariant.java
* FastqWriter.java
* IlluminaFastqReader.java
* IlluminaFastqWriter.java
* SangerFastqReader.java
* SangerFastqWriter.java
* SolexaFastqReader.java
* SolexaFastqWriter.java

These looks to me that is exactly what I need, but unfortunately I do
not how to use it.

On Sat, 27 Mar 2010 20:13:02 +0530
jitesh dundas wrote:

> Hello,
> 
> I could not find much info on that Q.Try the Biojava API for methods.
> 
> However, I would think of this problem as a simple text file parsing
> using BufferedReader and ByteInputStream based I/p ..You have to read
> the text file content byte by byte using a while loop. The loop will
> detect each column using the patterns (i haven't worked on fastq or
> biojava that much) in the text file, e.g. space tabs..
> Why don't you try reading this fastq file as a simple text file in
> java.
> 
> This is assuming that fastq are text files..Correct me if I am wrong..
> Java tutorial & forums have bulk of egs on that.
> 
> Try writing the code and send the fastq file with the java code if you
> face issues..
> 
> Hope this helps..
> 
> Regards,
> jd