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Crouzeix-Raviart sounds like an interesting candidate for solving incompressible Navier-Stokes problems as described briefly [here](https://fenicsproject.org/pub/book/book/fenics-book-2011-06-14.pdf)…
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https://github.com/brouwern/compbio2021/blob/4fc22d26cd66119a177fd9572bd409ffa989216d/MSA-walkthrough-assignment-part01.Rmd#L141
I am still a bit unsure exactly what the FASTA function is "cleaning…
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https://github.com/brouwern/compbio2021/blob/4fc22d26cd66119a177fd9572bd409ffa989216d/KEY-MSA-walkthrough-shroom.Rmd#L652
what does msaConvert convert the shrooms_align_seqinr to? Is it aligning it…
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Error in texi2dvi(texfile, quiet = !verbose, pdf = identical(output, "pdf"), :
pdflatex is not available
Error in base::try(shrooms_subset_dist_alt, silent = TRUE) : object 'shrooms_subset_dist_…
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https://github.com/brouwern/compbio2021/blob/4fc22d26cd66119a177fd9572bd409ffa989216d/KEY-MSA-walkthrough-shroom.Rmd#L203
I understand that we almost universally use the Fasta format for our nuclei…
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https://github.com/brouwern/compbio2021/blob/4fc22d26cd66119a177fd9572bd409ffa989216d/KEY-MSA-walkthrough-shroom.Rmd#L131
Why do you need to write 'dependencies = TRUE'? If you install the rentrez …
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https://github.com/brouwern/compbio2021/blob/4fc22d26cd66119a177fd9572bd409ffa989216d/MSA-walkthrough-assignment-part01.Rmd#L93
In creating new lines, does the cat() function start the alignment pr…
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https://github.com/brouwern/compbio2021/blob/4fc22d26cd66119a177fd9572bd409ffa989216d/KEY-MSA-walkthrough-shroom.Rmd#L630
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https://github.com/brouwern/compbio2021/blob/4fc22d26cd66119a177fd9572bd409ffa989216d/KEY-MSA-walkthrough-shroom.Rmd#L522
Why are there two brackets in the expression shrooms_list[[1]]? What does i…
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https://github.com/brouwern/compbio2021/blob/4fc22d26cd66119a177fd9572bd409ffa989216d/KEY-MSA-walkthrough-shroom.Rmd#L696
What is the difference between this line install_tinytex() and the line of…