Galaxy cannot recognize the uploaded fastq
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.
-
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. -
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 -
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)Comment
-
(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.Comment
-
NGS has revolutionized clinical microbiology by offering new ways to identify and surveil pathogens without prior knowledge of the target. One popular approach is 16S rRNA and ITS amplicon sequencing, which targets specific microbial markers. But studies are increasingly incorporating shotgun metagenomics, a technique that sequences all DNA from a sample without targeting specific microbial markers. This approach allows more detailed taxonomic classification,...10-30-2026, 06:46 AM -
Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?
Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating...10-14-2026, 09:55 AM
Comment