Question: Help
gravatar for Jennifer Hillman Jackson
6.1 years ago by
United States
Jennifer Hillman Jackson25k wrote:
Hello Pranathi, Sorry that you are having problems. Instead, use this Galaxy tool and the links directly between Galaxy and SRA to add the fastq data to your history: 1 - Get Data -> EBI SRA ENA SRA 2 - Enter "SRR192339" into the query box and click on search 3 - At the far right in the bottom table, under the "Fastq" tab, find a column named Galaxy, and under it a link for this data "Fastq file#1". Click on this, and the dataset should start loaded into the current active history. When you import data, be sure to note the other information about the experiment on the SRA form, so that you will know how to prepare the data for use in Galaxy. Note that you cannot load HTML data into Galaxy, so the index itself cannot be transferred directly. However you could copy and paste this into a plain text file (plain .txt, not .html), and upload that, if you wanted to keep a tracking history with the data. This particular data was generated by the Illumina Genome Analyzer IIx technology, which creates data that is compatible with ".fastqsanger" format in Galaxy. It is also single end. This simplifies the data prep - simply assign the datatype as ".fastqsanger" and it is ready to use with tools. Starting with "FastQC" is generally considered a good idea. Good luck with your project, Jen Galaxy team ps: Please note the corrected mailing list address "galaxy-". -- Jennifer Jackson
galaxy • 664 views
ADD COMMENTlink written 6.1 years ago by Jennifer Hillman Jackson25k
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