fastqc html file
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6 weeks ago
Cihan • 0

Hello, everyone, I'm new to Bioinformatics and Biostars. I have generated my .fastq files into .HTML applying the fastqc tool and now I would like to generate.HTML outputs and I don't know how to do it. Could you please help?

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I would like to generate the outputs of my _fastqc.html file. Thanks in advance.

bioinformatics fastqc • 500 views
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I have generated my .fastq files into .HTML applying the fastqc tool and now I would like to generate.HTML outputs

uh ?

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I used fastqc tool on my fastq files and it generated me the above HTML file and I would like to get the output of that HTML in my linux command line

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I would like to get the output of that HTML in my linux command line

cat SRR3474918_1_fastqc.html
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HTML output has already been generated. You simply need to "File --> Open" SRR3474918_1_fastq.html in your favorite browser.

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Key comment here. Take the html files off you cluster and open them locally, unless your cluster has some way to view html files.

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I don't have any user interface in that situation I have only access to the terminal

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You're not going to be able to look at an html file of plots using the terminal like you would look at a text output file. That's why the suggestion is for you to move the files to your local machine and view them from there.

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I get it now. Thank you so much.

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And what is your solution? What did you do to view the HTML file? Did you use "terminal browser" like links or did you download the HTML files to your computer? Your answer might help others with the same "problem"...

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