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Comment: Time-course, comparison of two groups by boczniak767 ▴ 720

As an exercise I've tried to analyze simpler but similar experiment. The data is from real experiment comparing wild type and mutant transc…

Answer: How to getting synonymous SNPs from BiomaRt before timing out? by James W. MacDonald 62k

Asking for multiple things at once will tend to blow out your results, as you will get every possible combination. ``` > options(timeou…

Comment: Definition of disease_subtype abbreviations by Lucas Schiffer ▴ 240

Hi Sehyun, I do not know myself and can only find one reference in the [template.csv](https://github.com/waldronlab/curatedMetagenomicDataC…

Answer: Are polynomial contrasts for a time factor possible in DESeq2? by ATpoint ★ 2.3k

As you can use a model.matrix() as input for the design you can use a great variety of models. A great read is this work from Ritchie/Smyth…

Comment: does anyone how to create rarefaction curves from a phyloseq object? by RMiller • 0

I am not sure what you have tried, but the "vegan" library (package) has the ability to do rarefaction. So make sure to load `library("veg…

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Popular Question to Robert Castelo ★ 3.0k