mkatari-bioinformatics-august-2013-deseq
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mkatari-bioinformatics-august-2013-deseq [2015/06/17 08:42] – mkatari | mkatari-bioinformatics-august-2013-deseq [2015/08/21 14:13] (current) – mkatari | ||
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Then we will load the experimental design. An example is provided [[https:// | Then we will load the experimental design. An example is provided [[https:// | ||
< | < | ||
- | expdesign = read.table(pathToExpDesign) | + | expdesign = read.table(" |
</ | </ | ||
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An important part of DESeq is to estimate dispersion. This is simply a form of variance for the genes. | An important part of DESeq is to estimate dispersion. This is simply a form of variance for the genes. | ||
< | < | ||
+ | # if you have replicates do the following: | ||
cds = estimateDispersions( cds ) | cds = estimateDispersions( cds ) | ||
+ | ### HOWEVER, If you have NO replicates, then try this | ||
+ | cds = estimateDispersions( cds, method=" | ||
</ | </ | ||
mkatari-bioinformatics-august-2013-deseq.1434530555.txt.gz · Last modified: 2015/06/17 08:42 by mkatari