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    35 repositories

    • wilkelab.github.io

      Public
      HTML
      •3•2•0•0•Updated Sep 11, 2024Sep 11, 2024

    • dataviz_shortcourse

      Public
      Materials for a dataviz shortcourse
      HTML
      •
      MIT License
      •0•5•0•0•Updated Aug 11, 2024Aug 11, 2024

    • cowplot

      Public
      cowplot: Streamlined Plot Theme and Plot Annotations for ggplot2
      R
      •84•703•33•3•Updated Jun 28, 2024Jun 28, 2024

    • ggridges

      Public
      Ridgeline plots in ggplot2
      R
      •
      GNU General Public License v2.0
      •31•412•44•2•Updated May 15, 2024May 15, 2024

    • SDS375

      Public
      SDS 375 Data Visualization in R
      HTML
      •86•286•1•0•Updated Apr 24, 2024Apr 24, 2024

    • cinful

      Public
      A fully automated pipeline to identify microcins along with their associated immunity proteins and export machinery
      Pep8
      •
      GNU General Public License v3.0
      •1•6•3•0•Updated Apr 11, 2024Apr 11, 2024

    • DSC385

      Public
      HTML
      •
      MIT License
      •10•16•1•1•Updated Apr 2, 2024Apr 2, 2024

    • gridtext

      Public
      Improved text rendering support for grid graphics in R
      R
      •
      Other
      •17•96•16•3•Updated Feb 28, 2024Feb 28, 2024

    • ggtext

      Public
      Improved text rendering support for ggplot2
      R
      •
      GNU General Public License v2.0
      •37•655•40•2•Updated Dec 19, 2023Dec 19, 2023

    • sicegar

      Public
      R package for the analysis of single cell virology growth curves
      R
      •4•9•3•1•Updated Jan 31, 2023Jan 31, 2023

    • cinful_data_analysis

      Public
      A repository for the analysis involved in "Evidence for widespread class II microcins in Enterobacterales genomes"
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•3•0•0•Updated Oct 19, 2022Oct 19, 2022

    • ggplot2_archive

      Public
      An implementation of the Grammar of Graphics in R
      R
      •
      Other
      •2k•2•0•0•Updated Jul 7, 2022Jul 7, 2022

    • Opfi

      Public
      A Python package for discovery, annotation, and analysis of gene clusters in genomics or metagenomics data sets.
      Python
      •
      MIT License
      •5•21•3•0•Updated Oct 26, 2021Oct 26, 2021

    • Metagenomics_CAST

      Public
      Metagenomic search for novel CRISPR-transposons
      C++
      •5•11•1•0•Updated Sep 30, 2021Sep 30, 2021

    • CRISPR_associated_transposons

      Public
      0•0•0•0•Updated Aug 17, 2021Aug 17, 2021

    • practicalgg

      Public
      Practical ggplot2
      R
      •
      Other
      •6•74•1•0•Updated Feb 1, 2021Feb 1, 2021

    • wilkelab.github.io.archive_sep_2020

      Public
      Source for wilkelab.org website
      HTML
      •3•7•0•0•Updated Sep 5, 2020Sep 5, 2020

    • glhlth590

      Public
      CSS
      •0•0•0•0•Updated Apr 26, 2020Apr 26, 2020

    • ungeviz

      Public
      Tools for visualizing uncertainty with ggplot2
      R
      •8•158•3•0•Updated Jan 24, 2019Jan 24, 2019

    • rates_measurement

      Public
      Shell
      •2•0•0•0•Updated Sep 11, 2018Sep 11, 2018

    • r4s_benchmark

      Public
      Shell
      •0•3•0•0•Updated Sep 6, 2018Sep 6, 2018

    • influenza_codon_usage

      Public
      Data and code for Smith et al., Avian Influenza Virus PB1 Gene in H3N2 Viruses Evolved in Humans To Reduce Interferon Inhibition by Skewing Codon Usage toward Interferon-Altered tRNA Pools, mBio 2018
      Python
      •1•1•0•0•Updated Jun 28, 2018Jun 28, 2018

    • eGFP_deletion_prediction

      Public
      R
      •0•1•0•0•Updated Feb 26, 2017Feb 26, 2017

    • Ecoli_PTMs

      Public
      Code and data for Brown et al., Large-scale analysis of post-translational modifications in E. coli under glucose-limiting conditions
      Jupyter Notebook
      •2•0•0•0•Updated Aug 30, 2016Aug 30, 2016

    • influenza_H3N2_passaging

      Public
      Data and code for McWhite et al., Sequence amplification via cell passaging creates spurious signals of positive adaptation in influenza virus H3N2 hemagglutinin, Virus Evolution (2016)
      HyPhy
      •2•2•0•0•Updated Aug 24, 2016Aug 24, 2016

    • ProteinEvolutionToolbox

      Public
      Python
      •9•14•0•0•Updated Mar 25, 2016Mar 25, 2016

    • rate_variability_variation

      Public
      Code and data for Jackson et al., Intermediate divergence levels maximize the strength of structure–sequence correlations in enzymes and viral proteins, Protein Science, in press.
      Python
      •1•1•0•0•Updated Jan 2, 2016Jan 2, 2016

    • HIV_RanBP2_modeling

      Public
      Python
      •1•0•0•0•Updated Oct 8, 2015Oct 8, 2015

    • influenza_pH1N1_timecourse

      Public
      HyPhy
      •2•5•1•0•Updated Jun 22, 2015Jun 22, 2015

    • therm_constraints_rate_variation

      Public
      Code and data for Echave et al., Relationship between protein thermodynamic constraints and variation of evolutionary rates among sites, Phys. Biol. 12:025002, 2015.
      Python
      •1•1•0•0•Updated May 22, 2015May 22, 2015