Dear all,
I need to generate the QC metrics of a dataset generated from LifeTechnology's SOLiD sequencer (SOLiD4 as well as the 5500xl). The output file format from the sequencer is xsq file format (eXtensible File format). Can some one please help suggest a way out.
FastQC has been a very critical tool for such QC metrics but uploads files in fastq format.
So how can I convert an xsq file to a fastq format?
or
How can I generate QC metrics using xsq files from the sequencer?
One way out is to use convert xsq file to csfasta and qual files, then use "solid2fastq" function from Bfast to convert it to fastq file. It is a two step process. Is this the only unique and elegant solution?
Hope the experts can help suggest.
Thanks in advance.
I need to generate the QC metrics of a dataset generated from LifeTechnology's SOLiD sequencer (SOLiD4 as well as the 5500xl). The output file format from the sequencer is xsq file format (eXtensible File format). Can some one please help suggest a way out.
FastQC has been a very critical tool for such QC metrics but uploads files in fastq format.
So how can I convert an xsq file to a fastq format?
or
How can I generate QC metrics using xsq files from the sequencer?
One way out is to use convert xsq file to csfasta and qual files, then use "solid2fastq" function from Bfast to convert it to fastq file. It is a two step process. Is this the only unique and elegant solution?
Hope the experts can help suggest.
Thanks in advance.
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