User: mark.dunning

gravatar for mark.dunning
mark.dunning200
Reputation:
200
Status:
Trusted
Location:
The University of Sheffield
Website:
http://sbc.shef.ac.uk/
Twitter:
@DrMarkDunning
Last seen:
4 weeks, 1 day ago
Joined:
6 years, 7 months ago
Email:
m***********@gmail.com

Bioinformatics Core Director

The University of Sheffield

Posts by mark.dunning

<prev • 22 results • page 1 of 3 • next >
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Answer: A: rRNA removal needed for salmon / DESeq2 analysis
... So the transcript file I was planning to use from Gencode does include rRNA sequences that I will have to remove before calling salmon ...
written 29 days ago by mark.dunning200
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Comment: C: rRNA removal needed for salmon / DESeq2 analysis
... Thanks! That seems like sensible advice. ...
written 4 weeks ago by mark.dunning200
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rRNA removal needed for salmon / DESeq2 analysis
... Hi all, I am re-analysing some RNA-seq data that I'm told have high levels of rRNA contamination (not sure how high yet). My usual workflow is salmon -> tximport -> DESeq2 I've seen recommendations that any reads matching rRNA need to removed prior to analysis. Is this still the case with th ...
rrna deseq2 salmon contamination written 4 weeks ago by mark.dunning200
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downloading zebrafish snps for annovar
... Hi, I am hoping to use annovar to annotate some zebrafish genome coordinates, and would like to incorporate snp positions. I can download reference sequences with the following retrieve_seq_from_fasta.pl tmp/danRer11_refGene.txt -seqdir tmp/danRer11_seq -format refGene -outfile tmp/danRer11_ ...
annovar zebrafish written 8 weeks ago by mark.dunning200
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Job: Sheffield Bioinformatics Core Analyst
... The Bioinformatics Core at The University of Sheffield is looking for an Analyst with strong statistical skills and awareness of best-practices and reproducible research. Please see below for a summary and how to apply **Summary** The University of Sheffield and its associated Medical School and H ...
job written 12 months ago by mark.dunning200
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Job: Sheffield Bioinformatics Core Analyst, The University of Sheffield, Sheffield, UK
... The University of Sheffield is launching a Bioinformatics Core, and we are looking for an Analyst to join the team If you have a passion for working with best practice Bioinformatics, promoting open science, and want to work in an awesome city, check it out! http://www.jobs.ac.uk/job/BDQ610/sheffi ...
bioinformatics core job analyst written 15 months ago by mark.dunning200 • updated 15 months ago by genomax59k
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Job: Sheffield Bioinformatics Core Analyst, University of Sheffield, Sheffield, UK
... The Bioinformatics Core at The University of Sheffield is looking for an Analyst. If best-practice Bioinformatics and reproducible research is your thing, check-out the full details below:- http://www.jobs.ac.uk/job/BBM484/sheffield-bioinformatics-core-analyst/ ...
bioinformatics core job written 18 months ago by mark.dunning200 • updated 18 months ago by genomax59k
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Comment: C: Link to TCGA mutation calling benchmark dead?
... Did you manage to find them? I used these data in a workshop recently and wanted to give the link to where to download the data, only to find they had disappeared! ...
written 2.3 years ago by mark.dunning200
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News: European Bioconductor Developers Meeting: Cambridge 7/8th December 2015
... Dear Bioconductors, We are pleased to announce that that European Bioconductor Developers Conference will take place in Cambridge, England from 7th-8th December 2015. The meeting is aimed at bioinformaticians, programmers and software engineers who contribute to the Bioconductor project, or are in ...
news conference bioconductor written 3.2 years ago by mark.dunning200
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Answer: A: Why Doesn'T Annovar With Dbsnp 129 Filter Anything
... Thanks all for your help and advice. It sounds like there may be an issue with the hg19 download of the database that I will follow-up with the annovar people. I'll definitely check out the 6500 exomes dataset too. Cheers, Mark ...
written 5.8 years ago by mark.dunning200

Latest awards to mark.dunning

Popular Question 12 months ago, created a question with more than 1,000 views. For Tea Pipeline For Hg19
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Vcftools Get-Info Output Name
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Why Doesn'T Annovar With Dbsnp 129 Filter Anything
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Genome Music - Pathway File
Student 3.2 years ago, asked a question with at least 3 up-votes. For Genome Music - Pathway File
Popular Question 5.4 years ago, created a question with more than 1,000 views. For Why Doesn'T Annovar With Dbsnp 129 Filter Anything
Popular Question 5.4 years ago, created a question with more than 1,000 views. For Genome Music - Pathway File
Popular Question 5.4 years ago, created a question with more than 1,000 views. For Ngsrich Output Explanation
Teacher 5.4 years ago, created an answer with at least 3 up-votes. For A: Genome Music - Pathway File
Student 5.4 years ago, asked a question with at least 3 up-votes. For Genome Music - Pathway File

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