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POFastq to fasta format with sed/awk command
 

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  1. POFastq to fasta format with sed/awk command
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    <p>I have a data with fastq format:</p> <pre><code>@HISEQ:157:C11RCACXX:6:1101:1522:2491 2:N:0:CGTACG GTGCCNNNNNNNNNNNNNNNNNNNNNNNTGCGNNNNNNNNNNNNNNCNNGCAGATACTCGTANNNNNNNNNGNNNNNNNN NNNNNNNNNNNNNNNNNNNNN + @BCFF########################################################################### ##################### @HISEQ:157:C11RCACXX:6:1101:1668:2494 2:N:0:CGTACG TCTTTNNNNNNNNNNNNNNNNNNNNNNNATTGNNNNNNNNNNNNNNTTNTGTTTTACGGTTTNNNNNNNNGCNNNNNNNN NNNNNNNNNNNNNNNNNNNNN + C@CFF########################################################################### ##################### @HISEQ:157:C11RCACXX:6:1101:2557:2492 2:N:0:CGTACG CCTCTNNNNNNNNNNNNNNNNNNNNNNNGTTGNNNNNNNNNNNNNNCNNCAACACACTCCTCNNNNNNNNGCNNNNNNNN NNNNNNNNNNNNNNNNNNNNN + CCCFF########################################################################### ##################### </code></pre> <p>and I want to split each read with "+" used awk command, but it didnt't work, Is there simple command with see/awk can convert it into fasta format?</p> <p>The expect output should be </p> <pre><code>&gt;HISEQ:157:C11RCACXX:6:1101:1522:2491 2:N:0: CGTACGGTGCCNNNNNNNNNNNNNNNNNNNNNNNTGCGNNNNNNNNNNNNNNCNNGCAGATACTCGTANNNNNNNNNGNNNNNNNN NNNNNNNNNNNNNNNNNNNNN &gt;HISEQ:157:C11RCACXX:6:1101:1668:2494 2:N:0: CGTACGTCTTTNNNNNNNNNNNNNNNNNNNNNNNATTGNNNNNNNNNNNNNNTTNTGTTTTACGGTTTNNNNNNNNGCNNNNNNNN NNNNNNNNNNNNNNNNNNNNN &gt;HISEQ:157:C11RCACXX:6:1101:2557:2492 2:N:0: CGTACGCCTCTNNNNNNNNNNNNNNNNNNNNNNNGTTGNNNNNNNNNNNNNNCNNCAACACACTCCTCNNNNNNNNGCNNNNNNNN NNNNNNNNNNNNNNNNNNNNN </code></pre> <p>Thanks a lot!</p>
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    1. COIn addition, I hope the last six reads of first line can merge with other reads, thanks!
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    2. CODo you have to use awk? If not, try googling: fastq to fasta.
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    3. COif you expect your readers to know what `fast(a) format` "looks like", you're greatly reducing the number of people that can help you. Consider editing your question to include the required output given your sample data. Also recall that `RS="+";ORS="\n"` will tell `awk` to split records at each '+' char, and write out revised records with just a newline char. Good luck.
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