convert illumina to fastq Sanger
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6.9 years ago

Hello, please, what is the line command that allows you to convert an illuminated file into fastq snager thanks for your help

sequencing • 2.3k views
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Have you tried tools provided here: Illumina-Fastq To Sanger-Fastq Conversion

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I want to convert an Illuminat type file to fastq Sanger i need the command line

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Please explain what you are trying to achieve and why, so that we can help you, as this request is confusing. Do you have a bcl file?

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I want to convert an Illuminat type file to fastq Sanger i need the command line

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Repeating the question does not count as explaining. Please elaborate.

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6.9 years ago
Sej Modha 5.3k

Please try the seqtk solution provided on this post: Illumina-Fastq To Sanger-Fastq Conversion

seqtk seq -Q64 -V  Read1.fastq > Read1.sanger.fastq

PS: It is good practice to ensure that a similar question doesn't exist or provided solutions don't work before a question is posted here.

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6.9 years ago
GenoMax 146k

You can also use reformat.sh from BBMap suite as follows: reformat.sh in=your_fastq.gz out=sanger_fastq.gz qout=33 (adjust file names as needed, use in1= in2= out1= out2= for PE data.

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