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Tom Jenkins

@Tom__Jenkins

Researcher in molecular ecology and genomics 🦇🦞🪸. Creator and maintainer of #mapmixture R package. Founder of TJ Data Visualisation.

 Exeter, England
tomjenkins.co.uk
Joined August 2016
  • Tweets2.4K
  • Following1.4K
  • Followers1.6K
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Photo by Tom Jenkins (@Tom__Jenkins)Photo by Tom Jenkins (@Tom__Jenkins)Photo by Tom Jenkins (@Tom__Jenkins)Photo by Tom Jenkins (@Tom__Jenkins)Photo by Tom Jenkins (@Tom__Jenkins)Photo by Tom Jenkins (@Tom__Jenkins)Photo by Tom Jenkins (@Tom__Jenkins)Photo by Tom Jenkins (@Tom__Jenkins)Photo by Tom Jenkins (@Tom__Jenkins)Photo by Tom Jenkins (@Tom__Jenkins)
My freelance data visualisation consultancy business goes live today! Please have a look at my website below and get in touch to discuss a project. I build user-friendly, professional-looking web applications, dashboards and interactive maps and charts. tomjenkins.co.uk
https://tomjenkins.co.uk

ALT https://tomjenkins.co.uk

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Explore real-time earthquakes in the last 24 hours or last week with this interactive dashboard. earthquake-dashboard.netlify… #earthquake #earth
Image from Tom Jenkins (@Tom__Jenkins)
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We're so proud of @Dr_MTaylor of @EssexLifeSci as she leads an @SchmidtOcean and @oceancensus expedition to the remote #SouthSandwichIsands that skirt Antartica. They are searching for new species and investigating the impact of deep sea volcanos. brnw.ch/21wRgSB
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I think I’d like a future job in app or dashboard development, because I really enjoy it! Here is my attempt at a Real-Time Earthquake Dashboard using US Geological Survey and Cesium APIs. earthquake-dashboard.netlify…
Screenshot of Real-Time Earthquake Dashboard

ALT Screenshot of Real-Time Earthquake Dashboard

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#mapmixture Shiny app User feedback has highlighted the utility of this app for teaching admixture and doing interactive demos in lectures / practicals. Please give it a try! • updated to version 1.2.0 (same as R package) • faster load times tomjenkins.shinyapps.io/mapm…
Image from Tom Jenkins (@Tom__Jenkins)
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Test data can be found here: github.com/Tom-Jenkins/mapmi… And the R package GitHub and CRAN pages here: github.com/Tom-Jenkins/mapmi… doi.org/10.32614/CRAN.packag…
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More than 40 percent of #postdocs leave academia. Those who landed a coveted faculty position were more likely to have had a highly cited paper, changed their research topic between their #PhD and postdoc, or moved abroad after receiving their doctorate. pnas.org/doi/10.1073/pnas.24… @PNASNews -> nature.com/articles/d41586-0… #ScienceCareer
Postdoc publications and citations link to academic retention and faculty success | PNAS

Postdoc publications and citations link to academic retention and faculty success | PNAS

Postdoctoral training is a career stage often described as a demanding and anxiety-laden time when many promising PhDs see their academic dreams sl...

pnas.org
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#mapmixture news: Version 1.2.0 release includes option to plot pies of different sizes, and preserving the individual input order on the structure plot. Install from CRAN with install.packages("mapmixture") github.com/Tom-Jenkins/mapmi…
Example admixture map generated through the R package mapmixture. The plot shows how users can plot pies of different sizes for sites.

ALT Example admixture map generated through the R package mapmixture. The plot shows how users can plot pies of different sizes for sites.

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#mapmixture R package plea: If you have used mapmixture in your study, please could you cite the paper describing the package in your manuscript. It really does help to show that people are actively using it in their research and analyses! doi.org/10.1111/1755-0998.13…
mapmixture: An R package and web app for spatial visualisation of admixture and population structure

mapmixture: An R package and web app for spatial visualisation of admixture and population structure

The mapmixture R package and interactive web app are tools to aid visualisation of admixture and population structure in geographic space. The purpose of mapmixture is to enable and encourage...

onlinelibrary.wiley.com
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Citation: Jenkins TL (2024). mapmixture: an R package and web app for spatial visualisation of admixture and population structure. Molecular Ecology Resources, 24: e13943. DOI: 10.1111/1755-0998.13943.
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🚨 Stop chasing the p-value! Increasing your sample size will always yield a significant result. Even for trivial differences. 🎮 I created a little interactive playground to illustrate this issue: react-graph-gallery.com/exam… Always pair p-values with effect sizes!
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Great to see #mapmixture being used for maps other than admixture. This study used the R package to plot proportions of a sample with species ecotype X, and allele frequencies of cod across sites in Norway. doi.org/10.1098/rsos.241760
Image from Tom Jenkins (@Tom__Jenkins)
Image from Tom Jenkins (@Tom__Jenkins)
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Window to stop decline of England’s nature closing fast, watchdog says theguardian.com/environment/…
Window to stop decline of England’s nature closing fast, watchdog says

Window to stop decline of England’s nature closing fast, watchdog says

Office for Environmental Protection calls for urgent action after finding government is falling short on most targets

theguardian.com
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Can we address the issue of seafood sector labour shortages in 2025? PLEASE TAKE THIS SHORT SURVEY [20 mins] if you work or have worked in the UK fishing, aquaculture or processing sectors. Survey results go straight to Government + industry leaders. online.ipsosinteractive.com/…
Image from Edd Hind-Ozan (@socialseas)
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New in ME by @josephine_paris, @dr_andyking, @patbhamilton, @jcatchen, & @Fish_Genomics. RADseq & RNAseq reveal the basis of metal tolerance in brown trout living in polluted rivers. @WileyEcolEvol @UniofExeterNews @ExeterEvo @ExeterMarine 📷 @DanielOsmond buff.ly/3Og5cyk
Picture of a brown trout.

ALT Picture of a brown trout.

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We’re hiring a 3-year #postdoc in statistical ecology in #Seattle. Apply your statistical skills to conservation & natural resource management: killer whales, dolphins, salmon, climate change, fisheries. Is this you? oceansinitiative.org/careers…
Image from Oceans Initiative (@oceansresearch)
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Pipelines with easy conda setup have been tested and are ready to try out, now with customisable input parameters. They are a simple alternative to bash loops or other means to run paired reads through routine bioinformatics tasks. Feedback welcome! github.com/Tom-Jenkins/nextf…
Screenshot of the home page documentation about setup and conda.

ALT Screenshot of the home page documentation about setup and conda.

Screenshot of the Kraken2 pipeline documentation.

ALT Screenshot of the Kraken2 pipeline documentation.

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#mapmixture news: version 1.1.4 release includes some extra options to customise the admixture map and structure plots. install from CRAN with install.packages("mapmixture"), requires R-4.2+ to be installed. github.com/Tom-Jenkins/mapmi…
Image from Tom Jenkins (@Tom__Jenkins)
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The informal poll results are in, & as I feared, most people are running ANOVAs in #R with functions that can give highly misleading (or flat out wrong) results. Follow along to see why using anova() and aov() is usually inadvisable & why you should be using car::Anova() 🧵
Image from Donald McKnight (@donaldmcknight2)
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