This is a joint work with @highlanderlab.bsky.social @gregorgorjanc.bsky.social The software is available in github and will also be on CRAN as soon as the screening is cleared. github.com/HighlanderLa...

GitHub - HighlanderLab/RandPedPCA: Principal Component Analysis of Pedigree Relationship Matrix via Randomized SVD

Principal Component Analysis of Pedigree Relationship Matrix via Randomized SVD - HighlanderLab/RandPedPCA

github.com

Lastly I gave a short course on Stochastic simulations of breeding programmes with AlphaSimR - a teaser for our free on-line course www.edx.org/learn/animal...

EdinburghX: Breeding Programme Modelling with AlphaSimR | edX

Breeding programmes are key to the genetic improvement of plant varieties and animal breeds used in agriculture. This unique course shows how to model an existing or new breeding programme and the eva...

edx.org

I presented the work of Letícia Lara on Evaluation of selective breeding programme designs for black soldier fly larvae body weight (with María Martínez Castillero, Thiago Oliveira, Ivan Pocrnić, Jana Obšteter)

Jana Obšteter presented the work of Laura Strachan on Optimizing pedigree reconstruction and patriline determination in honeybees (with Jernej Bubnič and Janez Presern)

Irene de Carlos Fernández presented her work on Modelling the Impact of Non-Native Honey Bee Importation on Native Apis mellifera mellifera Populations (with Laura Strachan, Grace McCormack, Jana Obšteter)

Last week some of us attended the 1st EAAP - European Federation of Animal Science Insect Genetics Workshop, which was organised with InsectIMP CA22140 COST Action action by Gertje Petersen and Jana Obšteter. We presented

HighlanderLab at PopGroup58 in Sheffield! It’s always interesting to attend the highly diverse set of talks and posters on population genetics and associated fields at the PopGroup conference. This year it was hosted by the University of Sheffield. We contributed with two talks and four posters.

Exciting PhD opportunity to join us at Roslin/Edinburgh and work with the largest whole-genome sequencing dataset in selective breeding. www.findaphd.com/phds/project...

EASTBIO: MegaPhase: Pedigree phasing and imputation for mega-scale whole genome sequence data at University of Edinburgh on FindAPhD.com

PhD Project - EASTBIO: MegaPhase: Pedigree phasing and imputation for mega-scale whole genome sequence data at University of Edinburgh, listed on FindAPhD.com

findaphd.com

A new pre-print “Robust Optimal Contribution Selection” led by Josh Fogg. We show how to account for the uncertainty and correlation of estimated breeding values in the optimal contribution selection problem: arxiv.org/abs/2412.02888

Robust Optimal Contribution Selection

Optimal contribution selection (OCS) is a selective breeding method that manages the conversion of genetic variation into genetic gain to facilitate short-term competitiveness and long-term sustainabi...

arxiv.org

AlphaSimR course edin.ac/3wfGSEj Week 2: It’s time for trait simulation - one of the key reasons we developed AlphaSimR - to study the principles of quantitative genetics and selective breeding. Here, we show the outline of such a simulation, ...

Gregor Gorjanc@gregorgorjanc.bsky.social · 2y ago

AlphaSimR course edin.ac/3wfGSEj Week 2: Continuing work with genomes and genotype variation, focusing on loci. We extract genotypes from a population, calculate and plot allele frequencies, and calculate and plot linkage-disequilibrium.

📺 In our seminar last week Dr Hannes Becher from @highlanderlab.bsky.social spoke about "Assembly-free estimation of population parameters using single-individual k-mer spectra". 🧬💻 If you missed the seminar, the recording is now available on our YouTube channel 👇 youtu.be/-wHqNbdpEog?... 🧪

Hannes Becher: Assembly-free estimation of population parameters using k-mer spectra

YouTube video by CGDG - Computational Genetics Discussion Group

youtu.be

Please share: Exciting post for a Quantitative Genetics and Breeding scientist to to develop and implement a breeding programme for artemia - a Knowledge Transfer Partnership between Aquanzo and Roslin Institute supported by KTN/KTP InnovateUK elxw.fa.em3.oraclecloud.com/hcmUI/Candid...

AlphaSimR course edin.ac/3wfGSEj Week 2: Continuing work with genomes and genotype variation, focusing on loci. We extract genotypes from a population, calculate and plot allele frequencies, and calculate and plot linkage-disequilibrium.

Gregor Gorjanc@gregorgorjanc.bsky.social · 3y ago

Free AlphaSimR course edin.ac/3wfGSEj Week 2: Time to look into populations and genomes of individuals! Here showing some identificatons of individual in a population, their haplotypes and genotypes, and showing how we can do basic operations on this information.

We just completed Armidale Genetics Summer Course on “Theory and Tools for Designing Breeding Programs of Animals and Plants”. jvanderw.une.edu.au/aabc2024.htm

New pre-print: "A framework for simulating GxE interaction using multiplicative models" by Jon Bancic, @gregorgorjanc.bsky.social and Daniel Tolhurst . researchsquare.com/article/rs-3...

We welcome Alex Lipka for a sabbatical at our lab at Roslin Institute. He took an obligatory photo with the founder of our vet school:)

If you are looking for a PhD involving topics mentioned in this thread here is an opportunity to join us findaphd.com/phds/project...

Sasha Gusev@sashagusevposts.bsky.social · 3y ago

Response to multiple generations of simple selective breeding (top 25%). No new mutations here so heritability drops to zero and response hits diminishing returns. Switch to random mating in generation 15.

New pre-print: “Plant breeding simulations with AlphaSimR” led by Jon Bancic in collaboration with Philip Greenspoon, Chris Gaynor, and @gregorgorjanc.bsky.social www.biorxiv.org/content/10.1... A short thread with highlights.