User: Kevin Lee
Kevin Lee • 40
- Reputation:
- 40
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- New User
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- Last seen:
- 6 years, 7 months ago
- Joined:
- 6 years, 7 months ago
- Email:
- k*************@gmail.com
Posts by Kevin Lee
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0
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Comment:
C: ExomeCopy error
... Thanks Mike,
I have now run exomeCopy to completion. Unfortunately, the output
looks
erroneous. The percent normal state is very low for all of the
samples
(around 10%). And consequently, when I visualize the plots using:
cnv.cols <- c("red", "orange", "black", "deepskyblue", "blue")
plotCom ...
written 6.6 years ago by
Kevin Lee • 40
0
votes
1
answer
811
views
1
answer
... Hello,
I am working with ExomeCopy, and I cannot get past this error:
fit.list <- lapply(sample.names, runExomeCopy, seqs)
*Error in negLogLike(c(logit(goto.cnv), logit(goto.normal), beta.hat,
log(phi.hat)), :*
* NA/NaN/Inf in foreign function call (arg 5)*
where:
runExomeCopy <- function ...
written 6.6 years ago by
Kevin Lee • 40
• updated
6.6 years ago by
Michael Love ♦ 26k
0
votes
1
answer
2.5k
views
1
answers
... Hello Simon,
I appreciate your assistance. A follow-up question: what is the
appropriate method to handle a read that splits an exon junction and
is
therefore mapped to two exons when using a short read mapping
software?
Counting it as being present in both exons seems to give undue weight
to
the ...
written 6.6 years ago by
Kevin Lee • 40
0
votes
1
answer
2.5k
views
1
answer
... Hello,
My name is Kevin Lee, and I am a PhD candidate in Bioinformatics at
Georgia
Institute of Technology. I have been trying to decide between various
normalization techniques for RNA-seq methods for a parasite infection
time-course study. The RNA-seq data that I will have will be from
infected ...
written 6.6 years ago by
Kevin Lee • 40
• updated
6.6 years ago by
Simon Anders • 3.6k
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For DESeq versus CuffDiff2 for RNA-seq expression quantification in parasite-infected blood
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