Forum: Bioinformatics
07-05-2011, 08:27 AM
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Replies: 0
Views: 2,165
Simulation package in R
Hi all,
I'm looking for a package or code which can generate artificial reads based on Genome or Transcripts using R.
If anyone knows this, that would be great :)
Jasmine
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Forum: Bioinformatics
02-09-2011, 06:19 AM
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Replies: 0
Views: 1,551
What is your trimming strategy?
I've been using Illumina data but the data which I got contain a lot of low quality data.
I tried to set a variety of trimming using quality score. If I set too strict, 70 or 80% of reads are...
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Forum: Bioinformatics
07-08-2010, 03:15 PM
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Replies: 3
Views: 2,805
I could find the Illumina Genome Analyzer IIx...
I could find the Illumina Genome Analyzer IIx data by below steps using SRAdb package :) I thought I should share what I did.
source("http://bioconductor.org/biocLite.R")
biocLite("SRAdb")...
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Forum: Bioinformatics
07-07-2010, 03:10 PM
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Replies: 3
Views: 2,805
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Forum: Bioinformatics
07-07-2010, 09:03 AM
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Replies: 3
Views: 2,805
How to search by instrument in SRA?
Hello all,
I'm looking for a public data set which used Genome Analyzer IIx. Does anyone know how to search NCBI SRA site by instrument name?
I'd like to find a data set which use 100bp read....
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Forum: Bioinformatics
06-16-2010, 03:17 PM
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Replies: 6
Views: 7,619
Hi RockChalkJayhawk,
I think your data...
Hi RockChalkJayhawk,
I think your data doesn't have id.
There is an example of nullp help,
data(prostate)
pwf <- nullp(genes, 'hg19', 'ensGene')
genes object has names,
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Forum: Bioinformatics
06-16-2010, 09:12 AM
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Replies: 6
Views: 7,619
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