User: Dave Lunt

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Dave Lunt1.9k
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Location:
Hull, UK
Website:
http://davelunt.net
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3 years, 5 months ago
Joined:
7 years, 5 months ago
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d********@gmail.com

Posts by Dave Lunt

<prev • 68 results • page 1 of 7 • next >
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Answer: A: How To Test If A Phylogenetic Tree Matches A Topological Hypothesis?
... You should also have a look at ETE, which has test for group monophyly built in and would be perfect for iterating across lots of trees: "ETE is a python programming toolkit that assists in the automated manipulation, analysis and visualization of phylogenetic trees" https://pythonhosted.org/ete2/in ...
written 3.5 years ago by Dave Lunt1.9k
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Job: Postdoc: Evolutionary Genomics Of Sexual Recombination (Hull, Uk)
... A 3-year PDRA position is now available in my lab at the University of Hull as part of a large, NERC-funded, multi-centre project entitled 'The Evolutionary Genomics of Sexual Recombination'. Using modern evolutionary comparative genomics approaches we aim to study the rate and pattern of genome seq ...
postdoc recombination genomics job written 5.2 years ago by Dave Lunt1.9k
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Answer: A: What'S The Difference Between Cds And Orf?
... ORF (Open Reading Frame) is best seen as a hypothesis of a protein coding region. It is the stretch of DNA between a start codon and the next stop codon. It is not a hypothesis of the whole protein coding region in eukaryotes (due to introns). CDS should be the whole coding region. Both those star ...
written 5.3 years ago by Dave Lunt1.9k
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Answer: A: Nematode Identification Through Ngs
... There are a few ways you could go with this Tuomas. Personally I don't think anything that is BLAST based is a good idea. This is phylogenetic problem at heart. BLAST will be just as good in some situations but make terrible hard to discover errors in others. QIIME is a very powerful tool, which w ...
written 5.3 years ago by Dave Lunt1.9k
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Answer: A: Can A Cds Be Also An Intron?
... Panos, Genbank CDS shouldn't contain introns: "coding region, coding sequence. CDS refers to the portion of a genomic DNA sequence that is translated, from the start codon to the stop codon, inclusively, if complete. A partial CDS lacks part of the complete CDS (it may lack either or both the start ...
written 5.5 years ago by Dave Lunt1.9k
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Answer: A: Why Total Exon Length Of 2/3Rds Of Ucsc Knowngenes Is Non-Divisible By 3?
... Hi chronos it might also be worth thinking about the nature of exons, cDNA and CDS. Some of the difficulty might arise from the terminology? When you say "Basically you're saying that to get cDNA, I have to glue together all exons, discarding everything before cdsStart and after cdsEnd, correct?" I ...
written 5.9 years ago by Dave Lunt1.9k
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Answer: A: Snp With More Than One Base ?
... Hi Pascal if I interpret your question correctly you are saying that you learned that there are some Single Nucleotide Polymorphisms (SNPs) in the human genome that are tri-allelic (3 different nucleotides in the population) rather than the much more usual bi-allelic. It is better to use this termin ...
written 5.9 years ago by Dave Lunt1.9k
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Answer: A: Can I Choose An Outgroup Based On Phylogenetic Tree Structure Alone?
... John, I think that your new outgroup choice will be fine, possibly even better. The general approach is to choose something close to the ingroup, but with no possibility of being actually within the (in)group you are studying. It would be better if you had support values to show that the new outgrou ...
written 6.0 years ago by Dave Lunt1.9k
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Answer: A: How Would You Use Open Source Tools For Laboratory Notebook System ?
... I use WordPress as a blog electronic lab notebook (ELN). I'm really happy with it. I always found wikis annoying without a crib sheet of codes in front of me. WordPress, like a wiki, is versioned- you can compare and go back to the version before you messed it all up! I have nothing against wikis, b ...
written 6.0 years ago by Dave Lunt1.9k
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Answer: A: Best Language For Introductory Programming Course From Within An Introduction Co
... It is very easy to see this from the point of view of bioinformaticians but as Lyco says here "[Perl] This might not be the tool of choice for the people hanging out at BioStar, but for the average biologist things look quite different" -this was an excellent point. I see the benefits of both Perl ...
written 6.2 years ago by Dave Lunt1.9k

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