Pinned Repositories
adding-species-manuscript
manuscript materials for the adding species paper
Analyses_of_genome_data
Repository created for the QCBio Worshop
Analyses_wolves_and_dogs
Repository created to share scripts used for the inference of demography and recombination in manuscript XXX.
analysis
Analysis of inference methods on standard population models
analysis2
Analysis for the second consortium paper.
PG_2018
Popgen_bacteria
This repository was created to upload the scripts used for population genetics analysis of the XX paper
Quantitative_genomics
The data used in this Project was originated from a M16 x ICR F_2 population of 943 mice in half-sib families with records for Body Weight (BW) and Food Intake (FI). Genomic analysis were executed based on a total of 1,821 SNP markers distributed across the chromosomes. It was first decided to treat the genetic effects as fixed factor in the regression model and fit each marker individually to compute the p-values of association. In order to compare the prediction of SMA approach with other models, it was decided to apply Bayesian Shrinkage Models, where the genomic variants were considered as random factors with prior distributions on marker effects. The models analyzed were: Bayes A, Bayes B, Bayes C, BayesRR and Bayes Lasso and Ridge Regression BLUP. In all models, variables of sex and batch were included as fixed factors.
Rhizobium_analysis
This repository was created in order to document and make available all the scripts used in the Rhizobium analysis.
Tree-of-life
This repository was creates for the course Tree of life held at Aarhus University - Denmark
izabelcavassim's Repositories
izabelcavassim/Rhizobium_analysis
This repository was created in order to document and make available all the scripts used in the Rhizobium analysis.
izabelcavassim/Popgen_bacteria
This repository was created to upload the scripts used for population genetics analysis of the XX paper
izabelcavassim/Tree-of-life
This repository was creates for the course Tree of life held at Aarhus University - Denmark
izabelcavassim/adding-species-manuscript
manuscript materials for the adding species paper
izabelcavassim/Analyses_of_genome_data
Repository created for the QCBio Worshop
izabelcavassim/Analyses_wolves_and_dogs
Repository created to share scripts used for the inference of demography and recombination in manuscript XXX.
izabelcavassim/analysis
Analysis of inference methods on standard population models
izabelcavassim/analysis2
Analysis for the second consortium paper.
izabelcavassim/awesome-ukraine-support
A list of resources and inititive to help the Ukraine
izabelcavassim/ansa
izabelcavassim/biopython
Official git repository for Biopython (converted from CVS)
izabelcavassim/ensembl-compara
The Ensembl Compara Perl API and SQL schema
izabelcavassim/Fitdadi_tutorial
Tutorial to run demographic and selection inference models using dadi and fitdadi.
izabelcavassim/grapes
(Greetings_here_is_yet_another) Rate of Adaptive Protein Evolution Software
izabelcavassim/gwf_UCLA_cluster
izabelcavassim/happy-birthday
Wish your friend/loved-ones happy birthday in a nerdy way.
izabelcavassim/IntroToR-1
izabelcavassim/izabelcavassim.github.io
izabelcavassim/Lethals_Project
izabelcavassim/Noncoding
DFE of noncoding regions
izabelcavassim/polyDFE
estimate the DFE and α from SFS data
izabelcavassim/popgen_polyploids
izabelcavassim/PRDM9_analyses
This repository was created to outline the analyses described in the paper Cavassim et al., 2020 of which we extracted all the RefSeq data available and searched for genes coevolving with PRDM9
izabelcavassim/RERconverge
Analysis of convergence between organismal traits and DNA/protein sequences
izabelcavassim/singlecell_viraltrack
Detection of Viral DNA in single cell human data
izabelcavassim/stat_rethinking_2022
Statistical Rethinking course winter 2022
izabelcavassim/stdpopsim
A library of standard population genetic models
izabelcavassim/UMI-tools
Tools for handling Unique Molecular Identifiers in NGS data sets
izabelcavassim/WorkshopQCBio_trial
Repository created for the QCBio trial workshps
izabelcavassim/workshops
A collection of workshop material