@colinaverill @NoahFierer Better to replicate the conditions for max GR to make the comparison.
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Eric Morrison
63 posts
Eric Morrison
@ewmorr
Microbial ecologist, postdoctoral scientist at University of New Hampshire.
New Hampshire, USA Beigetreten Mart 2017
146 Folgt155 Follower
@colinaverill @NoahFierer But, the roller paper only measures CUE under one condition. What’s the variability? Is the minimal media they used even a good substrate for all of those bacteria? Comparing maximum growth rate to a one off measurement of cue (with no error?) doesn’t seem ideal.
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@NateSilver538 Dude, remember when you furiously started tuning your model live on CNN during your first live election cycle panel discussion ? Also not a great look.
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@NateSilver538 I like how @natesilver538 has somehow become the leading voice on lab leak hypothesis when, despite being apparently a smart guy, he doesn’t know shit about genetics or epidemiology
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It's definitely hard to fact check when none of the facts are in dispute.
Magdi Jacobs@magi_jay
I've struggled with how to "fact-check" the nature of the chat against the claims made by @NateSilver538 & others. Frankly, it's a difficult business. It's very easy to spread conspiracy about science b/c the nature of the science is almost impenetrable to the general public.
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@NoahFierer In case you're interested we have a paper that supports your point (albeit, fungi isolated from leaf litter) sciencedirect.com/science/articl…
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Eric Morrison retweetet
@NateSilver538 So you are arguing that virologists have a COI in government funded virology research *because* they’re virologists? HUH? @NateSilver538 can not be trusted with US election modeling because he gets paid for it I guess…
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That's actually a pretty important issue! A lot of scientists publishing on COVID origins have COIs! It doesn't mean you discount them completely. But in any other journalistic context, that would call for a fair amount of skepticism.
Josh Marshall@joshtpm
This is a fascinating new approach in Lab Leak Discourse: scientists with domain knowledge are eliminated from conversation over conflicts of interest.
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@fungi_lover What about the literally thousands of studies based on single-species model systems (yeast, E. coli, etc)? I guess it’s framing, but also seems the bar is higher for non model species.
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@SierraScientist Unpopular opinion: yes, and phyloseq mostly just wraps other packages anyways, so, why?
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@panickedpostdoc @AcademicChatter If someone wanted your help with something and you spent time and expertise it should be recognized, especially when most of these are not monetized for postdocs and other higher level academics.
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@panickedpostdoc @AcademicChatter I obv don’t know the situation, but personally I only accept co-authorship when I feel I have meaningfully contributed. Seems like there’s a trend towards downweighting co-author contributions which could have a negative impact on collaboration.
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@mdziemann Probably more straight forward to teach a concept like this an advanced undergraduate biology class than learning a whole new/several custom software packages.
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@mdziemann So am I correct in that enrichment tests are just a fisher exact test with gene counts in/out of the category of interest in test set vs background? With following correction for multiple comparisons. It’s actually pretty simple to set up in R if so.
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@fungi_lover @ESAMicrobe @ASMicrobiology @IMA_Mycology @MSAStudents You could try @seqcoast genomics. New company but tons of sequencing exp by the ppl who run it
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@phoniatrician @PatSchloss The code is maybe a bit ugly (or base R-y? We are using R after all…) but seems to me the succinct statement above is equivalent to 3-4 lines of piped dplyr statements
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@phoniatrician @PatSchloss += is hugely valuable for updating variables on the fly… I finally dug into data.table and have been using := which seems to stand alone in R for this purpose e.g., dt[row filtering logic, col := col + 1]
Great for iterative search and updating counts for one example
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Eric Morrison retweetet
Post-doctoral position is now open! @NSF funded project focused on marine microbial stoichiometry w/ A. Martiny of @UCIEEB. Come join a great group of colleagues @ColoradoStateU @CSUmicrobiome, @SOGES_CSU, @CSU_Ecology apply here: jobs.colostate.edu/postings/107254 !
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Note, this is a short communication. Might make great beach reading! 🏖️🏄
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Part of this was also the last chapter of my PhD (2017) and has been through several iterations since, partly because research in microbial traits has been moving so quickly. Sometimes perserverance matters most!
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I'm happy to share a new article, "Evidence for a genetic basis in functional trait tradeoffs with microbial growth rate but not growth yield," in collaboration with @seritafrey @geyerkev @sgrandysoil @kristenobacter and others! Free access until Aug 26 at authors.elsevier.com/a/1fN6j_tPj9OSU
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