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    18 repositories

    • expand-fasta

      Public
      Python
      •0•0•0•0•Updated Nov 11, 2024Nov 11, 2024

    • HIVDiversity.github.io

      Public
      github IO page for the lab
      JavaScript
      •0•0•0•0•Updated Nov 3, 2024Nov 3, 2024

    • RO1_Selection_analysis_pre_processing

      Public
      Preprocessing of alignments vefore doing selection analysis on lineage files
      Shell
      •0•0•0•0•Updated Dec 4, 2023Dec 4, 2023

    • V705_Sequence_alignment_process

      Public
      Python
      •5•0•0•0•Updated Sep 28, 2023Sep 28, 2023

    • informative_sites

      Public
      short piece of code to gather informative sites from alignments
      Python
      •
      GNU General Public License v3.0
      •0•0•1•1•Updated Jun 21, 2022Jun 21, 2022

    • cluster_align

      Public
      Shell
      •
      MIT License
      •0•0•0•0•Updated Jun 15, 2021Jun 15, 2021

    • EpitopeMatcher

      Public
      A package that can be used to find out how well the epitopes in a patient's virus' will be recognized by the HLA's present in the patient.
      R
      •2•0•0•0•Updated Aug 24, 2020Aug 24, 2020

    • hiv_custom_sequencelogo

      Public
      create a custom sequence logo from a fasta file and a list of sites to use
      Python
      •1•0•0•0•Updated May 13, 2020May 13, 2020

    • clustering_by_hdbscan

      Public
      create haplotypes of unaligned DNA sequences using kmer counts and hdbscan
      Python
      •0•1•0•0•Updated May 13, 2020May 13, 2020

    • Samuel_Kariuki

      Public
      work and code for Samuel Kariuki
      Python
      •0•0•0•0•Updated Oct 1, 2019Oct 1, 2019

    • kraiklyn

      Public
      A Hugo theme for one page documentation
      HTML
      •
      MIT License
      •33•0•0•0•Updated Sep 6, 2019Sep 6, 2019

    • MotifBinner2

      Public
      R
      •1•2•8•0•Updated Aug 20, 2019Aug 20, 2019

    • NGS_processing_pipeline

      Public
      Python
      •1•0•1•0•Updated Aug 20, 2019Aug 20, 2019

    • docker-ogv-timing

      Public
      A docker environment with all requirements installed to run the ogv-timing pipeline
      Dockerfile
      •0•0•0•0•Updated Aug 13, 2019Aug 13, 2019

    • jupyter-rad

      Public
      Dockerfile
      •1•0•0•0•Updated Feb 27, 2019Feb 27, 2019

    • NextGenSeqUtils.jl

      Public
      NextGenSeqUtils:
      Julia
      •
      Other
      •5•0•0•0•Updated Dec 14, 2018Dec 14, 2018

    • small_bix_tools

      Public
      Python
      •
      GNU General Public License v3.0
      •0•0•4•0•Updated Aug 20, 2018Aug 20, 2018

    • NGS_analysis_pipeline

      Public
      Python
      •1•0•4•0•Updated May 17, 2018May 17, 2018