User: Phil Ewels

gravatar for Phil Ewels
Phil Ewels600
Reputation:
600
Status:
Trusted
Location:
Sweden / Stockholm / SciLifeLab
Website:
http://phil.ewels.co.uk/
Twitter:
tallphil
Scholar ID:
Google Scholar Page
Last seen:
2 weeks, 4 days ago
Joined:
5 years, 11 months ago
Email:
p*********@scilifelab.se

Bioinformatician working for the NGI Applications group at SciLifeLab in Stockholm. Interested in epigenetics. Author of MultiQC.

Posts by Phil Ewels

<prev • 33 results • page 1 of 4 • next >
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Comment: C: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
... To follow - I managed to take a quick look in an evening over my holiday and it was not as trivial as I was hoping. I did manage to put up a notice though. I'll try to find some time to sit down with it in the next couple of weeks to do some code refactoring / rewriting and get it up and running aga ...
written 18 days ago by Phil Ewels600
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Comment: C: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
... Not easily - I don’t have a computer with me. If I can edit code to add a notice on the web page then I can probably fix whatever the issue is :) I’ll be back home in a few days (though technically still on holiday) so will try to take a look then. If I can’t figure it out quickly then I’ll add a no ...
written 6 weeks ago by Phil Ewels600
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Comment: C: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
... Yes - I’ve had a bunch of reports about problems over the past few days. I guess that an API endpoint changed somewhere. I’m on holiday at the moment but will take a look when I’m back. Apologies for the inconvenience! ...
written 6 weeks ago by Phil Ewels600
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Comment: C: MultiQC extra_fn_clean_exts for specific module
... Hi Rick, It took me a little while, but I've just added support for this feature. It's documented here: https://multiqc.info/docs/#other-search-types See the above issue for details: https://github.com/ewels/MultiQC/issues/905 I hope this helps! Phil ...
written 4 months ago by Phil Ewels600
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Comment: C: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
... Ok great! Glad you got it sorted. No problem at all :) ...
written 10 months ago by Phil Ewels600
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Comment: C: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
... Hi [ATpoint][1], I'm a little confused - doesn't the backslash in the command escape the whitespace? Usually paths with `two\ words` are fine (`two words` would not be). What error do you see? In the [post reporting this problem][2] I can only see paths *without* the backslash escape, so I can unde ...
written 10 months ago by Phil Ewels600
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Answer: A: Installing MultiQC on Ubuntu
... See https://multiqc.info/docs/#installing-multiqc > Before we start - a quick note that using the system-wide installation of Python is **not** recommended. This often causes problems and it's a little risky to mess with it. If you find yourself prepending `sudo `to any MultiQC commands, take a ...
written 11 months ago by Phil Ewels600
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Answer: A: ask for a CWL script to perform FASTQC to get quality control files, then use th
... # This step is necessary since the input files # must be loaded into the working directory as there # is no way to specify the input file directly on the # command line. Note that you can give specific file paths to MultiQC if you want to, it doesn't _have_ to be a directory. The fo ...
written 11 months ago by Phil Ewels600
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Comment: C: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
... Nice idea and great tutorial! I've just added this functionality - it would be great if you could have a look and make sure that I haven't made any errors.. Note that I added an option to append a `mv` command to rename the files. I've never used Aspera myself, so I hope this actually works! ...
written 19 months ago by Phil Ewels600
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Tool: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
... Hi all, As a fun little side project I've made a web tool to find runs on the NCBI Sequence Read Archive (SRA) and fetch the download URLs for these. You can do all of this in a couple of clicks, hopefully quite a bit easier than navigating the main SRA pages. In addition to getting the SRA links ...
sra fastq tool sequence-read-archive download written 19 months ago by Phil Ewels600 • updated 3 hours ago by ATpoint39k

Latest awards to Phil Ewels

Prophet 3 months ago, created a post with more than 20 followers. For sra-explorer : find SRA and FastQ download URLs in a couple of clicks
Popular Question 11 months ago, created a question with more than 1,000 views. For System developer at NGI Stockholm Sequencing Facility, SciLifeLab Sweden
Scholar 11 months ago, created an answer that has been accepted. For A: Converting FASTQC Reports to PDF
Popular Question 19 months ago, created a question with more than 1,000 views. For sra-explorer : find SRA and FastQ download URLs in a couple of clicks
Scholar 19 months ago, created an answer that has been accepted. For A: Converting FASTQC Reports to PDF
Scholar 19 months ago, created an answer that has been accepted. For A: MultiQC extra_fn_clean_exts for specific module
Teacher 19 months ago, created an answer with at least 3 up-votes. For A: Converting FASTQC Reports to PDF
Appreciated 19 months ago, created a post with more than 5 votes. For sra-explorer : find SRA and FastQ download URLs in a couple of clicks
Scholar 22 months ago, created an answer that has been accepted. For A: Converting FASTQC Reports to PDF
Teacher 22 months ago, created an answer with at least 3 up-votes. For A: Converting FASTQC Reports to PDF
Autobiographer 6.0 years ago, has more than 80 characters in the information field of the user's profile.

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