Galaxy cannot recognize the uploaded fastq

[juhang_62]

I try to use Tophat to do RNA analysis on Galaxy. I uploaded a fastq file. But there is no choices for that dataset. See detailed in screenshots.




I am wonder if there is something wrong with the format of the fastq file.

[maubp]

You need to say what kind of FASTQ it is, e.g. Sanger or Illumina. Click on the history entry's pencil button to edit this

[Bukowski]

it may be tangential, but useful to know that it's not the most standard FASTQ format, it's come from the NCBI Sequence Read Archive which is why it contains more metadata than you might expect (i.e. on the + line prior to the qualities)

[maubp]

(Leaving aside colour space) the FASTQ files from the NCBI SRA are standard Sanger encoded, but yes, they do have different meta data in the free description line to what you'd see from the original instrument.