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From http://jbrowse.org/demos/yeast_pilon_jbrowse_datadir.tar.gz
 [adds prefixes](https://github.com/SysBioChalmers/RAVEN/issues/353) to metabolite, reac…
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II have been trying to automate every base chemical from renewable sources, and now i was focusing on ethanol production> I have been encountering a few problems working with the aging barrel and so t…
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Hi,
Thanks a lot for creating treetime, looks like a very useful tool and I wanted to run this for reconstructing the ancestral sequences of my yeast genomes.
I run: `treetime ancestral --aln my…
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getMetadata will not work for yeast database. must do the join manually
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I thought I'd take a look at this with Valgrind's threading error tool, helgrind. I haven't identified the problem yet but I do see that if I run:
`valgrind --tool=helgrind src/crux t…
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Hi Michael,
First of all thank you for the useful code! It has helped my friends and I immensely in various biological network research projects.
There is one issue regarding the example data yo…
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The sacCer3 reference genome chromosome naming ids use roman numerals in the official copy and arabic numerals in other resources (to match system used by other model organisms). We want to support co…
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Aim: write some code that produces a table of codon pairs with their genes and the positions of the aa's which would function as the input for a metafeature plot for inhibitory codon pairs (see Gamble…