#compbio — Public Fediverse posts
Live and recent posts from across the Fediverse tagged #compbio, aggregated by home.social.
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Pinto et al. present SCINKD as a framework to identify unannotated sex chromosomes and curate diploid genome assemblies from a single individual.
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Didelot et al. present the R package DiagnoDating for diagnosing issues in a reconstructed dated phylogeny, including outlier detection, posterior predictive checking and residual analysis.
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Daniel Huson introduces displacement-optimized tanglegrams (DO-tanglegrams), a new approach that applies equally to trees and rooted phylogenetic networks, performing better than cophylo on trees and then NN-tanglegram on networks.
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McArthur et al. present piqtree, an easy to use, open-source Python package that provides Python script-based control of IQ-TREE’s phylogenetic inference engine.
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Can't wait to read this thriller by Carsten Kutzner that dropped: "Scaling of the GROMACS Molecular Dynamics Code to 65k CPU Cores on an HPC Cluster" /hj
In seriousness, this sounds like a really cool, and difficult, problem! Looking forward to seeing how they approached it.
#fediscience #compbio -
Evento próximo y con registro gratuito. Las anteriores ediciones han sido realmente enriquecedoras
See You there if interest
#phil #compsci #philsci #compBio #computerscience #computer_history #hist #history #histsci #philosophy #biol #biology #cogsci #cognitivescience #mind #mindscience -
A paper I'm an author on has finally been published! Congrats to all the authors, especially the 3 co-leads.
https://www.nature.com/articles/s41588-024-01826-3
How structural variants affect the 3D chromatin structure in metastatic castration-resistant prostate cancer and facilitate a bunch of biologically interesting interactions in the nucleus is really interesting, especially how that affects gene expression and disease progression.
Please take a look!
#prostateCancer #bioinformatics #compBio #genomics #3Dgenome
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Postdoctoral Position in Mathematical and Computational Biology/Biophysics
J. Heyrovsky Institute of Physical Chemistry, Czech Academy of Sciences
Hiring a #MathBio / #CompBio / #Biophysics / #AppliedMath postdoctoral fellow to work on #enzyme assembly modeling @JHINST_Prague!
See the full job descri...
https://jobrxiv.org/job/j-heyrovsky-institute-of-physical-chemistry-czech-academy-of-sciences-27778-postdoctoral-position-in-mathematical-and-computational-biology-biophysics-2/?feed_id=75011 -
Postdoctoral Position in Mathematical and Computational Biology/Biophysics
J. Heyrovsky Institute of Physical Chemistry, Czech Academy of Sciences
Hiring a #MathBio / #CompBio / #Biophysics / #AppliedMath postdoctoral fellow to work on #enzyme assembly modeling @JHINST_Prague!
See the full job descri...
https://jobrxiv.org/job/j-heyrovsky-institute-of-physical-chemistry-czech-academy-of-sciences-27778-postdoctoral-position-in-mathematical-and-computational-biology-biophysics-2/?feed_id=74822 -
Postdoctoral Position in Mathematical and Computational Biology/Biophysics
J. Heyrovsky Institute of Physical Chemistry, Czech Academy of Sciences
Hiring a #MathBio / #CompBio / #Biophysics / #AppliedMath postdoctoral fellow to work on #enzyme assembly modeling @JHINST_Prague!
See the full job descri...
https://jobrxiv.org/job/j-heyrovsky-institute-of-physical-chemistry-czech-academy-of-sciences-27778-postdoctoral-position-in-mathematical-and-computational-biology-biophysics-2/?feed_id=74367 -
Postdoctoral Position in Mathematical and Computational Biology/Biophysics
J. Heyrovsky Institute of Physical Chemistry, Czech Academy of Sciences
Hiring a #MathBio / #CompBio / #Biophysics / #AppliedMath postdoctoral fellow to work on #enzyme assembly modeling @JHINST_Prague!
See the full job descript...
https://jobrxiv.org/job/j-heyrovsky-institute-of-physical-chemistry-czech-academy-of-sciences-27778-postdoctoral-position-in-mathematical-and-computational-biology-biophysics/?feed_id=70846 -
Postdoctoral Position in Mathematical and Computational Biology/Biophysics
J. Heyrovsky Institute of Physical Chemistry, Czech Academy of Sciences
Hiring a #MathBio / #CompBio / #Biophysics / #AppliedMath postdoctoral fellow to work on #enzyme assembly modeling @JHINST_Prague!
See the full job descript...
https://jobrxiv.org/job/j-heyrovsky-institute-of-physical-chemistry-czech-academy-of-sciences-27778-postdoctoral-position-in-mathematical-and-computational-biology-biophysics/?feed_id=69223 -
Postdoctoral Position in Mathematical and Computational Biology/Biophysics
J. Heyrovsky Institute of Physical Chemistry, Czech Academy of Sciences
Hiring a #MathBio / #CompBio / #Biophysics / #AppliedMath postdoctoral fellow to work on #enzyme assembly modeling @JHINST_Prague!
See the full job descript...
https://jobrxiv.org/job/j-heyrovsky-institute-of-physical-chemistry-czech-academy-of-sciences-27778-postdoctoral-position-in-mathematical-and-computational-biology-biophysics/?feed_id=69216 -
Today I learned how to create an interactive HTML report for gene-set enrichment analysis in R. It allows readers to examine set-level results & drill down into the underlying gene-level statistics interactively.
https://tomsing1.github.io/blog/posts/interactive-gene-set-results/
It's a static HTML page, e.g. no server (#shiny, #dash, etc) needed. Thanks a lot to the authors of the #plotly #reactable #crosstalk and #htmlwidget tools for making this so easy #til #rstats #bioconductor #gsea #compbio #visualization @lianos -
A lot of software can provide genotype likelihood for a #WGS #NGS sample, only one I know provide the likelihood of ALL 10 genotypes for a site, i.e. ANGSD.
Anyone knows any software that calculate all allele likelihood for a site? So I wanna know the probability of observing allele A, C, G, and T in a site. The ones I found only provide probability of one allele (consensus/random).
#Genomics #genomic #PopulationGenomics #bioinformatic #compBio
:boost_ok: :boost_requested: :mastoread:
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Biomedical #Informatics, #AIInMedicine, #DigitalHealth folks:
You are invited to add yourself to the Biomedical & #HealthInformatics Social Media Directory maintained by me:
https://sites.google.com/view/informaticsdirectoryHopefully this will help us stay connected no matter what platform!
Please Boost!
#TwitterMigration #MastadonMigration #AMIAInformatics #BiomedicalInformatics #DataScience #AI
@healthinformatics
@informatics
#EHR #bioinformatics #compbio #clinicalinformatics #informatician #informaticist -
By way of #introduction for the great migration: I am a builder of models: computational (#ml, #machinelearning), mathematical, and scale models (#hoscale #scalemodel). Working as a computational biologist / bioinformaticist for ExosomeDx. (#multiomics #scRNA-seq #dimensionality #bioinformatics #computationalbiology #compbio) Follower of and/or interested in #osint, science history, nuclear power, #trains, pretty birds, canyon hikes, and scientific ethics.