Biostar ReadDGE

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limma readDGE edgeR

updated 16 months ago by James W. MacDonald 60k • written 16 months ago by abhisekdey061 • 0

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readDGE edgeR

updated 6.2 years ago by Gordon Smyth 46k • written 6.2 years ago by humberto_munoz • 0

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Answer: Design and contrast matrices for analyzing the effect of two factors of interest by Gordon Smyth 46k

> In a typical regression, I would just add them to the model when estimating my coefficients of interest Why not do the same with limma? …

Comment: TPM normalization starting with read counts by Gordon Smyth 46k

> So you think my method in TPM normalization that I introduced above is not good? Your computation of RPKM using edgeR is fine, provided …

Comment: error in package GenVisR while installing by 堃 • 0

Package ‘FField’ was removed from the CRAN repository.[enter link description here][1] I installed FField by using remotes::install_github…

Comment: DESeq 2 failes to load by Ruggero • 0

This solved the error, in case someone else is having compilation errors from installing RSQllite: install.packages('RSQLite', repos='http…

Comment: pathview says my nonmodel species is unknown: "species invalid" by Guido Hooiveld ★ 3.3k

A while ago a faced the same for another non-model organism. I was able to get it working using a 'hack'. This hack is nothing more than m…

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DiffBind affinity vs occupancy Heatmaps

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