Forum: Bioinformatics
08-15-2012, 09:42 AM
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Replies: 4
Views: 3,006
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Forum: Bioinformatics
08-13-2012, 07:10 AM
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Replies: 1
Views: 931
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Forum: Bioinformatics
08-11-2012, 10:59 AM
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Replies: 4
Views: 3,006
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Forum: Bioinformatics
08-11-2012, 08:21 AM
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Replies: 2
Views: 1,267
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Forum: Bioinformatics
08-10-2012, 05:29 AM
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Replies: 2
Views: 1,196
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Forum: Bioinformatics
08-09-2012, 10:00 PM
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Replies: 2
Views: 1,196
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Forum: Bioinformatics
08-09-2012, 01:58 PM
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Replies: 4
Views: 3,006
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Forum: Bioinformatics
08-09-2012, 06:22 AM
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Replies: 0
Views: 1,268
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Forum: Literature Watch
08-09-2012, 04:13 AM
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Replies: 77
Views: 52,641
Hi, valeu,
I am currently have two cancer...
Hi, valeu,
I am currently have two cancer cells datas(the same cancer) from human, the coverage depth are about 33,39, with a depth statistics for each base. In this case, what is the best...
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Forum: Bioinformatics
08-08-2012, 03:37 AM
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Replies: 1
Views: 1,190
normalized_RD signal is very large in CNVnator
I have a question, I have very large values for this
normalized_RD, likes 4.275*e^12 level (and the size of the CNV is
about e^6 level), is there anything wrong because of this? And does...
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Forum: Bioinformatics
08-07-2012, 09:46 AM
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Replies: 3
Views: 1,316
hi, thank krobison!
I still don't understand...
hi, thank krobison!
I still don't understand some points here. so choose all the SNP detected and labelled 1, 2, ...., so then we construct a hidden markov model with transition probability and...
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Forum: Bioinformatics
08-07-2012, 01:46 AM
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Replies: 3
Views: 1,316
What does CNV has anything to do with SNP
In SNP genotyping array data, we use the singal intensity at each SNP to infer CNV by using Hidden Markov Model, what does CNV region has anything to do with SNP detected?I am so confused about this!...
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Forum: Bioinformatics
08-06-2012, 08:39 PM
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Replies: 0
Views: 985
about hidden markov model
I am currently trying to understand the hidden markov model in the detection of CNV for SNP genotyping array data. But I am confused totally. I understand fully HMM model, but i even dont' understand...
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Forum: Literature Watch
08-05-2012, 07:57 PM
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Replies: 77
Views: 52,641
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Forum: Literature Watch
08-03-2012, 06:14 AM
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Replies: 77
Views: 52,641
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Forum: Literature Watch
08-02-2012, 11:40 PM
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Replies: 77
Views: 52,641
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Forum: Literature Watch
08-01-2012, 12:45 AM
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Replies: 77
Views: 52,641
a unusual problem in FREEC
I meet an unusual problem when I run FREEC. If I provide a mateCopyNumberFile, and then qsub, it will run sucessfully, but in fact I normally don't have mateCopyNumberFile, but if I don't provide it,...
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Forum: Bioinformatics
07-31-2012, 04:19 AM
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Replies: 0
Views: 1,110
the output format of CNVnator
What's the fourth column in the output file of CNVnator? It seems it is not the normalized RD. And we have 9 columns totally, but in README it has only 6 columns totally.
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Forum: Bioinformatics
07-23-2012, 02:09 AM
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Replies: 0
Views: 846
What's genotyping SNP data
Some software require the input file is genotyping SNP data, what does that mean? What's the difference between this and WGS data?
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Forum: Bioinformatics
07-13-2012, 11:07 PM
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Replies: 0
Views: 1,382
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Forum: Bioinformatics
07-13-2012, 10:41 PM
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Replies: 0
Views: 935
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Forum: Bioinformatics
07-12-2012, 07:42 AM
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Replies: 1
Views: 1,387
A problem in CNVnator
When I do the histogram in CNVnator I find that it shows on the screen:
maximum buffer size exceed
what is the problem here? Thank you for help!
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Forum: Bioinformatics
07-12-2012, 07:17 AM
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Replies: 0
Views: 1,271
Help! a problem in CNVnator
When I do partition step, it shows:
Abnormal range (101, 120) (like this)
What does this mean? Anything wrong in the last steps?
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Forum: Bioinformatics
07-12-2012, 06:53 AM
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Replies: 0
Views: 1,262
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Forum: Bioinformatics
07-12-2012, 05:53 AM
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Replies: 1
Views: 1,647
A problem in the steps in CNVnator
For the second step in running CNVnator, I see from the README that:
Files with chromosome sequences are required and should reside in running directory or directory specified by -d option. Files...
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