Thanks.
Xi
Originally posted by svl
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Sorry that yesterday our building encountered a power cut, so our web server was not at work. Our site works well now.
Thanks.
Xi
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hi svl,
Thanks for using DEGseq.
If you want to install DEGseq from bioconductor, you should update your R to v2.10.0. Or you can install DEGseq by typing the following.
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source("http://bioinfo.au.tsinghua.edu.cn/software/degseq/DEGseqInstall.R")
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Best regards,
Xi
Originally posted by svl View PostLeave a comment:
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Thanks. I figured it out. Had to update R and Bioconductor before trying to install the package....should keep my software better updated I guess
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I had to try it a few times before I could get it loaded. Good luck.Originally posted by svl View PostLeave a comment:
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I seem to be unable to install the package...anyone had succes?
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source("http://bioconductor.org/biocLite.R")
biocLite("DEGseq")
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Also their site is unavailable: http://bioinfo.au.tsinghua.edu.cn/software/degseq
Here is the page at Bioc: http://www.bioconductor.org/packages...ml/DEGseq.htmlLeave a comment:
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DEGseq
Hey all,
A new package has come out for RNA Seq Analysis:
DEGseq: an R package for identifying differentially expressed genes from RNA-seq data.
Wang L, Feng Z, Wang X, Wang X, Zhang X.
Bioinformatics. 2009 Oct 24. [Epub ahead of print]
PMID: 19855105 [PubMed - as supplied by publisher]
However, from my understanding (which may not be correct) they only use tags that map to the genome, not splice juntions. Does anyone else see this and if so, what would be the work-around?
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I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.
Here are nine questions we think about, in roughly the order they matter, before...06-18-2026, 07:11 AM -
Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.
The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
...06-02-2026, 10:05 AM
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