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Inna Gerlovina @innager01

Researcher at UCSF

Joined February 2018
  • Tweets 21
  • Following 92
  • Followers 26
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Inna Gerlovina retweeted
Genetics Society of America@GeneticsGSA
17 Nov 2022
Gerlovina et al. present Dcifer, a method for calculating genetic distance between polyclonal infections that explicitly accounts for population allele frequencies and complexity of infection, and provides reliable inference. #GENETICS | bit.ly/3V76PQ6
Dcifer: an IBD-based method to calculate genetic distance between polyclonal infections

ALT Dcifer: an IBD-based method to calculate genetic distance between polyclonal infections
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Inna Gerlovina retweeted
@EPPIcenter at UCSF@EPPIcenter_UCSF
2 Nov 2022
Nov 2 #ASTMH Stop & chat with our presenters linked doc bit.ly/3SXxj5o @Victorasua Phil Rosenthal @NBrokhattingen @jessikator @miss_mosquiteer @IsobelRoutledge @jo_rae_v @MxMrphy @michelleroh @innager01 @Victorasua @IsabellaAuchus @ben83638 @HarrisProgram @ArikthaSri
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Estimate genetic relatedness between polyclonal infections from rich genetic data (biallelic, multiallelic): our Dcifer paper is now out in Genetics! academic.oup.com/genetics/ar… (1/4)

Dcifer: an IBD-based method to calculate genetic distance between polyclonal infections

Abstract. An essential step toward reconstructing pathogen transmission and answering epidemiologically relevant questions from genomic data is obtaining p

academic.oup.com
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Details and summary of the paper in this thread x.com/innager01/status/15161…

Inna Gerlovina@innager01
18 Apr 2022
Our Dcifer preprint is out! Dcifer (Distance for complex infections: fast estimation of relatedness) is a method to define and calculate genetic distance between polyclonal infections. Don’t give up on polyclonal infections, Dcifer them! biorxiv.org/content/10.1101/…
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R package on CRAN cran.r-project.org/web/packa…, development version here github.com/EPPIcenter/dcifer, and the page with demo and examples here eppicenter.github.io/dcifer/. Post issues and don't hesitate to reach out with questions!

dcifer: Genetic Relatedness Between Polyclonal Infections

An implementation of Dcifer (Distance for complex infections: fast estimation of relatedness), an identity by descent (IBD) based method to calculate genetic relatedness between polyclonal infections...

cran.r-project.org
Update on Dcifer (genetic distance between polyclonal infections): the package is on CRAN now and can be installed with install.packages("dcifer"). For the latest development version and demo, check out EPPIcenter.github.io/dcifer/
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Our Dcifer preprint is out! Dcifer (Distance for complex infections: fast estimation of relatedness) is a method to define and calculate genetic distance between polyclonal infections. Don’t give up on polyclonal infections, Dcifer them! biorxiv.org/content/10.1101/…

Dcifer: an IBD-based method to calculate genetic distance between polyclonal infections

An essential step toward reconstructing pathogen transmission and answering epidemiologically relevant questions from genomic data is obtaining pairwise genetic distance between infections. For...

biorxiv.org
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With @bgreenhouse1 @isabelrodbar @EPPIcenter_UCSF
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On an almost unrelated note: check out a very useful mixed radix incrementing algorithm that has solved all of Dicfer’s combinatorial problems - and can solve so much more! github.com/innager/mirsa

GitHub - innager/mirsa: Mixed radix incrementing algorithm

Mixed radix incrementing algorithm. Contribute to innager/mirsa development by creating an account on GitHub.

github.com
Inna Gerlovina retweeted
Jessica Briggs@jessikator
11 Apr 2020
Hi! @EPPIcenter_UCSF and SCOPE teams are starting to enroll a longitudinal study to understand the immune response to #COVIDー19. If you have tested positive, and would be OK with blood & saliva testing, please email LIINC@ucsf.edu with your name & number!
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