Nicholas Ollberding

WHERE WILL HER GO? youtube.com/shorts/R_e3tsR… via @YouTubesqwssvz wet few 12222222222

In mice, pups with a #microbiome fortified w/ #butyrate had reduced risk of #biliaryatresia Study @NatureComms nature.com/articles/s4146… Congrats @bezerratweet @DrRomesPhD @Nick10243 and team! View our blog: scienceblog.cincinnatichildrens.org/boosting-the-m…

Lots of #COVID19 cases in Greater #Cincinnati today - highest daily total since winter. Highest case rate (per 100,000 on a 7-day moving average) is now among youth 0-19yo. #GetVaccinatedNow & #MaskUp for yourself, your neighbors, and our children. #DeltaVariant #schoolreopening

What started as a 1 day side project turned into a nearly 3 year long lab analysis. "Microbiome differential abundance methods produce disturbingly different results across 38 datasets" biorxiv.org/content/10.110…

bioBakery 3 is out in @eLife! It describes our latest versions of MetaPhlAn 3, HUMAnN 3, StrainPhlAn 3, PanPhlAn 3 and more from @cibiocm and @hutlab ! Huge thanks to so many but especially to Francesco Beghini @chocophlan and Lauren McIver! elifesciences.org/articles/65088

The latest mSystems brings to the public a new interactive web tool for visualizing large-scale phylogenetic trees - Read all about it: jacobsschool.ucsd.edu/news/release?i… @IBMResearch #mSystemsJ @ASMicrobiology #Phylogenetic @qiime2 #Python

Submit your responses now for the National Microbiome Data Collaborative survey for users: bit.ly/nmdc_survey.

#Statistics thought of the day: if you are not certain how to transform a continuous dependent variable to make assumptions work (e.g. normality of residuals) use a semiparametric method that is transformation-invariant, e.g. proportional odds/hazard model. #rmscourse #bbrcourse

Metalign: efficient alignment-based metagenomic profiling via containment min hash genomebiology.biomedcentral.com/articles/10.11… github.com/nlapier2/Metal…

New R package rmsb: Bayesian counterpart to the rms (regression modeling strategies) package now on CRAN. Uses pre-compiled @mcmc_stan code. Information including lots of examples at hbiostat.org/R/rmsb #rmscourse @vandy_biostat @VUDataScience

In addition, you can now also set discrete colour/fill scale defaults via a vector (or list) of colour codes. Super useful for providing colour-blind safe defaults! #rstats

Woohoo -- I finally carved out some time today to make a Wiki to answer the most common questions I get about my #R #rstats package `breakaway` 🥳😻🎀 Check it out here: github.com/adw96/breakawa… #rstats #microbiome #microbialdiversity

HUMAnN 3.0 (alpha) is out! Functionally profile #metagenomes or #metatranscriptomes at species-level resolution. Designed in tandem with MetaPhlAn 3.0, more options for fine-tuning tiered search, 2x the species #pangenomes and 3x the gene families. Enjoy! huttenhower.sph.harvard.edu/humann3/

powmic: #Rstats pkg for power assessment in #microbiome case-control studies academic.oup.com/bioinformatics… github.com/lichen-lab/pow…

If you like using propensity matching, think again. See pubmed.ncbi.nlm.nih.gov/18058851/ or proceedings.mlr.press/v9/guo10a/guo1… by @PhilDawid or gking.harvard.edu/publications/w… by @kinggary

Got observational data with time-varying treatments and confounders? Want to estimate the effects of sustained treatment strategies? Then you'll enjoy this gentle introduction to the gfoRmula package in #rstats. Led by Sean McGrath & Victoria Lin cell.com/patterns/pdf/S…

David is producing clean thorough tidyverse versions of my book exercises. Seems useful for you tibblers.

@toates_19 Thanks Tom. I am glad you found it helpful!

@f2harrell @vandy_biostat Hi Frank @f2harrell ! Thanks for sharing the blog post. I hope people find it helpful. Look forward to digging into some of the new Bayesian functionality soon!

Wow I had no idea that @Nick10243 had done this introduction to the "Harrellverse": nicholas-ollberding.com/post/an-introd… Thank you Nicholas!! Alerting tomorrow's course about it #RStats @vandy_biostat #rmscourse