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@mrrlab Robinson-Rechavi Group - Evolutionary Bioinformatics

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    20 repositories

    • Robust_data_driven_gene_expression_inference_code

      Public
      All code and data used to reproduce the figures in the preprint "Robust Data-driven gene expression inference for RNA-seq using curated intergenic regions"
      Jupyter Notebook
      •1•0•0•0•Updated Apr 16, 2026Apr 16, 2026

    • RegEvol

      Public
      A computational framework for detecting directional selection in regulatory sequences through phenotypic predictions and phenotype-to-fitness models.
      R
      •2•2•0•0•Updated Feb 25, 2026Feb 25, 2026

    • AGenDiv

      Public
      Delving into the European ampioxus gnomic diversity
      R
      •
      GNU Affero General Public License v3.0
      •1•0•0•0•Updated Jan 13, 2026Jan 13, 2026

    • Teleost_convergence

      Public
      Contains information regarding Estimates of molecular convergence reveal genes with intermediate pleiotropy underlying adaptive variation across teleost fish
      HTML
      •
      MIT License
      •2•0•0•0•Updated Jan 12, 2026Jan 12, 2026

    • fish-variability-across-organs

      Public
      R
      •1•0•0•0•Updated Jul 16, 2025Jul 16, 2025

    • BraLan3

      Public
      R
      •1•0•0•0•Updated Sep 14, 2022Sep 14, 2022

    • fastcodeml

      Public
      Optimization strategies for fast detection of positive selection on phylogenetic trees
      C++
      •
      Other
      •0•0•0•0•Updated Sep 6, 2022Sep 6, 2022

    • taxonbridge

      Public
      R package to merge the NCBI taxonomy and the GBIF backbone taxonomy
      R
      •
      Creative Commons Zero v1.0 Universal
      •1•0•0•0•Updated Jul 4, 2022Jul 4, 2022

    • cost_noise_conservation_rhythmicity

      Public
      Code for "Rhythmicity is linked to expression cost at the protein level but to expression precision at the mRNA level" paper
      R
      •1•0•0•0•Updated Jun 27, 2022Jun 27, 2022

    • godon

      Public
      Forked from https://bitbucket.org/Davydov/godon
      Go
      •
      Other
      •0•0•0•0•Updated Nov 2, 2021Nov 2, 2021

    • RRTree

      Public archive
      A program for relative-rate tests
      C
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 1, 2021Nov 1, 2021

    • bioquery

      Public
      JavaScript
      •
      Other
      •1•0•0•0•Updated Jul 9, 2021Jul 9, 2021

    • Testing_the_ortholog_conjecture

      Public
      R
      •
      GNU General Public License v2.0
      •2•0•0•0•Updated Mar 26, 2021Mar 26, 2021

    • A-robust-method-for-detecting-positive-selection-on-regulatory-sequences

      Public
      We present an in silico mutagenesis based approach to transcription factor binding sites evolution, based on a machine learning model of binding.
      R
      •3•0•0•0•Updated Mar 9, 2021Mar 9, 2021

    • Method-matters-in-gene-family-evolution

      Public
      R
      •2•0•0•0•Updated Sep 25, 2020Sep 25, 2020

    • godon-tutorial

      Public
      a demonstration of Godon usage; Godon is implementing codon model optimization written in Go
      F*
      •1•0•0•0•Updated May 31, 2020May 31, 2020

    • rhythm_detection_benchmark

      Public
      HTML
      •2•0•0•0•Updated Feb 24, 2020Feb 24, 2020

    • expression-noise-across-fly-embryogenesis

      Public
      studying the conflict between precision and stochasticity of gene expression during development
      R
      •1•0•0•0•Updated Jul 12, 2019Jul 12, 2019

    • developmental_constraints_genome_evolution

      Public
      Developmental constraints on genome evolution in four bilaterian model species
      R
      •1•0•0•0•Updated May 24, 2018May 24, 2018

    • Adaptive-evolution-in-late-development-and-adult

      Public
      Study the relative contributions of relaxation of purifying selection vs. increase in positive selection, in the observed high sequence divergence of genes from…
      R
      •1•0•0•0•Updated Jan 10, 2018Jan 10, 2018
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