Question: how to perform alignment using Hisat2
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gravatar for Learner
8 months ago by
Learner 10
Learner 10 wrote:

Actually I have several questions to ask but I try to be very much to the point.

I want to upload data from ftp ebi.ac.uk) into galaxy and then align them by HISAT2 and then extract the htseq-count.

Simply I long in into galaxy, then I click on https://www.ebi.ac.uk/ena/data/ and then search for one job and click one by one on the FASTQ files (Galaxy) and it will import them to my workspace. Now the questions

1- I get two fastq files for each sample using ebi.ac.uk why is that ? 2- can someone show how to use HISAT2 in this case ? 3- how to get the hsetq-count ?

Thanks

rna-seq alignment • 505 views
ADD COMMENTlink modified 8 months ago by Jennifer Hillman Jackson25k • written 8 months ago by Learner 10
0
gravatar for Jennifer Hillman Jackson
8 months ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Please see the RNA-seq tutorials here for example workflows: https://galaxyproject.org/learn/

Thanks! Jen, Galaxy team

ADD COMMENTlink written 8 months ago by Jennifer Hillman Jackson25k
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