Fastq datasets can have many different encodings for quality scores. See here for
Many tools in Galaxy require that fastq datasets be in fastqsanger format and designated
as such in its datatype. Because your data appears to be in Sanger/Illumina 1.9 format,
you can simply change the datatype (click on the pencil icon to change the datatype). If
you have fastq datasets in other encodings, you can use the FastQ groomer tool to convert
it to Sanger format.
On Jul 18, 2013, at 9:41 PM, Ricardo Perez wrote:
We are doing some processes in our server that use fastq files. We have obtained the
data in .sra format and then convert them into fastq format using the sra tool kit.
However, when we upload this files into galaxy, some tools does not recognize the file as
fastq. When we apply FasQC:Read QC, under summary statistics it says that encoding is
Sanger / Illumina 1.9. Is this an error of our part while installing galaxy in our
Thank you for your time,
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