User: eric.kern13
eric.kern13 • 90
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Posts by eric.kern13
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... Suppose I have the following read:
AAGGAAGGAAGGAAGGACTTCCTT
I want to align it to one of these two reference sequences:
AAGGAAGGAAGGAAGGACAAGGAA
AAGGAAGGAAGGAAGGCCTTCCTT
Clearly, the second reference sequence is where the read belongs: there's only one mismatch. The maximum mappable ...
written 7 weeks ago by
eric.kern13 • 90
• updated
7 weeks ago by
Santosh Anand • 2.7k
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... Works like a charm. Thank you very much! ...
written 11 weeks ago by
eric.kern13 • 90
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... I tried to; it didn't work. I'll try again. ...
written 11 weeks ago by
eric.kern13 • 90
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... I want to retrieve all genes corresponding to a given mammalian phenotype ontology term (for example, MP:0005375), preferably within R. Are there tools to do this? Can I do it within BioMart? Or is the best bet to build something around the APIs [here][1] or [here][2]?
Related: [similar question fo ...
written 11 weeks ago by
eric.kern13 • 90
• updated
11 weeks ago by
Mike Smith • 200
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Comment:
C: cell surface receptor genes
... Thanks for this list of resources! ...
written 9 months ago by
eric.kern13 • 90
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... Below, I quote a response from Kai Wang, ANNOVAR creator/maintainer:
> you should just use table_annovar.pl to print out allele frequency for
> all variants in your input. The word "minor allele frequency" cannot
> be defined well, because rare allele in one population will be common
> ...
written 9 months ago by
eric.kern13 • 90
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... Hi Biostars,
I'm using ANNOVAR to annotate some WGS data. I want to pare down the list until I am left with variants of very low frequency. I've got ANNOVAR working, but I'd appreciate your help interpreting its output. Here's what I did.
To split out the rare variants, I issued this command (or r ...
written 9 months ago by
eric.kern13 • 90
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... How many rows of data do you have? Linear models such as ANOVA rely heavily on independence of errors and constant variability, but with enough data, normality is not as crucial. ...
written 15 months ago by
eric.kern13 • 90
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... Did you check the locus it mentions ( 5:35101444 ) to see if there's anything wrong in the data? ...
written 15 months ago by
eric.kern13 • 90
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... First, a couple of things that may have gone wrong:
- There is no natural association between the first eigenvector and the first person, the second eigenvector and the second person, etc.
- Why does that comment say eigvals if you're talking about the individuals' eigenvectors?
Now my answer. In ...
written 21 months ago by
eric.kern13 • 90
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