Moderator: Simon Cockell

gravatar for Simon Cockell
Simon Cockell7.3k
Reputation:
7,270
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Location:
Newcastle
Website:
http://sjcockell.me/
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Last seen:
3 months, 3 weeks ago
Joined:
8 years, 3 months ago
Email:
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Bioinformatician, support scientist, Python programmer. Full bio on my blog. You can also follow me on Twitter.

I run the Bioinformatics Support Unit at Newcastle University.

Posts by Simon Cockell

<prev • 181 results • page 1 of 19 • next >
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Comment: C: Vacancies at Newcastle University, UK
... This afternoon would be better for me - any time from 3pm. Happy to chat. ...
written 4 months ago by Simon Cockell7.3k
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Job: Vacancies at Newcastle University, UK
... SCIENTIFIC OFFICER, BIOINFORMATICS Salary: £24,983 - £26,495, with progression to £28,936. Closing Date: 09 February 2018 Newcastle University has recently made a substantial investment in genomics - being among the first UK Universities to acquire an Illumina NovaSeq 6000. The Bioinformatics Sup ...
novaseq bioinformatics job written 4 months ago by Simon Cockell7.3k • updated 4 months ago by YaGalbi1.1k
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Job: Cancer Bioinformatician. Newcastle University, UK.
... Closing date: 21st April 2017. The Newcastle University Bioinformatics Support Unit is seeking to hire a motivated, independent bioinformatician to support active research programmes in the Northern Institute of Cancer Research. The successful applicant will join a large and successful team of sup ...
core facility job cancer written 13 months ago by Simon Cockell7.3k
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Comment: C: How to avoid conversion of gene symbols to date format in Excel
... I admire your idealism @harold.smith.tarheel, but >10 years of experience has taught me that this will not work. You'll pry Excel from their cold, dead hands. ...
written 20 months ago by Simon Cockell7.3k
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Comment: C: How to avoid conversion of gene symbols to date format in Excel
... I would argue that for most, Excel is unfortunately unavoidable - yes, *you* can personally avoid it, but as soon as you send your tab-delimited table to someone else to look at - science is collaborative after all - *they* will open it in Excel. The mangling of gene names by Excel is an entirely ...
written 20 months ago by Simon Cockell7.3k
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Answer: A: How to avoid conversion of gene symbols to date format in Excel
... If we assume that Excel is an unavoidable evil (and for most this is unfortunately a credible assumption)... When importing your delimited data into Excel, be sure to set the column type appropriately. The default for all columns is 'General' - this will lead to the inevitable auto-correct mangling ...
written 20 months ago by Simon Cockell7.3k
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Answer: A: How to identify every read in a fastq file?
... This would seem like a good use case for something like Kraken: But your ability to assign *every* read in your experiment to an organism of origin will depend entirely on the completeness of your database. ...
written 20 months ago by Simon Cockell7.3k
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Comment: C: What is the appropriate approach for ChIPseq protein genome occupancy % calculat
... If the pie chart you're after is like the ones shown in the link provided in Ido's answer below, then I am not mistaken. It is perfectly possible for a ChIP region to be both in a promoter of one gene, and downstream of another gene - so the data are not categorical & a pie chart is wrong. Just ...
written 2.9 years ago by Simon Cockell7.3k
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Comment: C: What is the appropriate approach for ChIPseq protein genome occupancy % calculat
... Your data are not categorical (a occupancy site could intersect with many genomic features) - so a pie chart (rarely the right approach) is definitively wrong here.  ...
written 2.9 years ago by Simon Cockell7.3k
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Job: Two Positions in Bioinformatics Core Facility, Newcastle, UK
... The Newcastle University Bioinformatics Support Unit (BSU) has an 9-year history of supporting cutting-edge research in the Faculty of Medical Sciences. We currently have two open vacancies to join our successful team. One will be based full time in the BSU, dealing with core support requests from ...
bioinformatics jobs job written 3.7 years ago by Simon Cockell7.3k

Latest awards to Simon Cockell

Teacher 9 months ago, created an answer with at least 3 up-votes. For A: Does Bowtie2 Map Multiple Reads To The Same Gene?
Popular Question 17 months ago, created a question with more than 1,000 views. For How To Find Sequences For Protein Names (A Challenge)
Appreciated 20 months ago, created a post with more than 5 votes. For A: Manipulate Sequences In Fastq Files
Good Answer 20 months ago, created an answer that was upvoted at least 5 times. For A: Manipulate Sequences In Fastq Files
Popular Question 20 months ago, created a question with more than 1,000 views. For Two Positions in Bioinformatics Core Facility, Newcastle, UK
Commentator 20 months ago, created a comment with at least 3 up-votes. For C: What Would You Recommend Me For A One Year Project: Develop A Bioinformatics Sof
Appreciated 20 months ago, created a post with more than 5 votes. For A: Manipulate Sequences In Fastq Files
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: Does Bowtie2 Map Multiple Reads To The Same Gene?
Pundit 2.4 years ago, created a comment with more than 10 votes. For C: What Are The Most Common Stupid Mistakes In Bioinformatics?
Popular Question 2.4 years ago, created a question with more than 1,000 views. For Two Positions in Bioinformatics Core Facility, Newcastle, UK
Appreciated 3.7 years ago, created a post with more than 5 votes. For A: Manipulate Sequences In Fastq Files
Good Answer 3.7 years ago, created an answer that was upvoted at least 5 times. For A: Manipulate Sequences In Fastq Files
Good Answer 3.7 years ago, created an answer that was upvoted at least 5 times. For A: Parsing Pdbcodes To Their Cath Numbers
Popular Question 3.7 years ago, created a question with more than 1,000 views. For How Would You Define If A Peptide Is Exposed At The Surface Of A Protein?
Popular Question 3.7 years ago, created a question with more than 1,000 views. For What License Do You Use When You Release Code And Data?
Appreciated 4.5 years ago, created a post with more than 5 votes. For A: Manipulate Sequences In Fastq Files
Appreciated 4.5 years ago, created a post with more than 5 votes. For C: What Are The Most Common Stupid Mistakes In Bioinformatics?
Appreciated 4.5 years ago, created a post with more than 5 votes. For A: Parsing Pdbcodes To Their Cath Numbers
Appreciated 4.5 years ago, created a post with more than 5 votes. For A: Should We Accept The Terms For The Migration To Stackexchange 2.0
Appreciated 4.5 years ago, created a post with more than 5 votes. For A: Bioinformatics Career Survey 2011/2012
Appreciated 4.5 years ago, created a post with more than 5 votes. For A: Where Can I Get Stats For Previous Uniprot Release?
Appreciated 4.5 years ago, created a post with more than 5 votes. For A: What Is The Most Appropriate Uri For A Journal Article?
Appreciated 4.5 years ago, created a post with more than 5 votes. For A: Your Favorite Bioinformatics Blogs (October 2011)

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