This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Ab Solid Fastq To Illumina Fastq

HI Everyone

I have AB solid data The fastq file looks like this

@SRR334700.1 solid0527_20110502_FRAG_BC_ReidWT_bcSample1_ReidWT_1_5_16 length=50
T120202210232000020002.00301000012.100...00........
+SRR334700.1 solid0527_20110502_FRAG_BC_ReidWT_bcSample1_ReidWT_1_5_16 length=50
!/<%2/:%*)-%%0'--'')/.!%('1'%),+/%!&',!!!'+!!!!!!!!

I have dealt with only illumina fastq files. Can you tell me how can i convert it into a format of illumina fastq files. Moreover what would be the difference between illumina fastq and solexa fastq and sanger fastq format

Regards

Varun

solid
• 7,927 views • link
updated by JC JC • written by Varun Gupta Varun Gupta

1 answer

As @brentp pointed, you don't need to convert to base space, you can use the color space with Bowtie/TopHat, Novoalign, SHiRMP and other mappers and even assemblers. The major difference between the FASTQ formats are in the quality scores scale used, wikipedia has a good table for that: http://en.wikipedia.org/wiki/Fastq

• 0 views • link
written by JC JC

Log in to answer this question.

More posts like this