User: eric.kern13
eric.kern13 • 130
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Posts by eric.kern13
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... Did you ever get this working? I am interested to compare notes regarding the format of the resulting BED file. ...
written 6 weeks ago by
eric.kern13 • 130
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... Your link currently gives this thread as the first hit. Profit indeed. ...
written 3 months ago by
eric.kern13 • 130
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... Using the ncbi UNIVEC reference or similar, you can do a BLAST search against common artificial sequences.
https://www.ncbi.nlm.nih.gov/tools/vecscreen/univec/ ...
written 6 months ago by
eric.kern13 • 130
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... What have you tried so far? One sensible solution might be to try:
- whatever you would try if you didn't have to worry about low counts; maybe K-means
- some out-of-the-box method such as PAGODA. http://hms-dbmi.github.io/scde/pagoda.html
If those don't get you to where you need to be, then where ...
written 12 months ago by
eric.kern13 • 130
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Comment:
C: Question about dbSNP rs #s
... Do you know of an easy way to update rsid's that have been retired? ...
written 15 months ago by
eric.kern13 • 130
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... (I would like to hear the answer to this as well.) ...
written 18 months ago by
eric.kern13 • 130
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... This is an interesting comment and I'd like to understand it better. Are you using the word "regularization" in the statistical sense, for example as in "Tikhonov regularization"? If so, can you describe the statistical methods you have in mind? Also, how do you know that there are more duplicates p ...
written 18 months ago by
eric.kern13 • 130
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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 20 months ago by
eric.kern13 • 130
• updated
20 months ago by
Santosh Anand ♦ 4.6k
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... Works like a charm. Thank you very much! ...
written 21 months ago by
eric.kern13 • 130
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... I tried to; it didn't work. I'll try again. ...
written 21 months ago by
eric.kern13 • 130
Latest awards to eric.kern13
Popular Question
6 months ago,
created a question with more than 1,000 views.
For 1000 genomes technical data: match exon capture probes to samples
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6 months ago,
created a question with more than 1,000 views.
For Read depths from 1000G exome sequencing are almost all zero.
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6 months ago,
created a question with more than 1,000 views.
For Mappability Scores from bigWigAverageOverBed all zero
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10 months ago,
created a question with more than 1,000 views.
For +/- strand conventions for probe sequences
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For Pysam cannot find index
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created a question with more than 1,000 views.
For Pysam cannot find index
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