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@acorg Antigenic Cartography

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    100 repositories

    • roessler_netzl_et_al2024

      Public
      Code repository for the non-human primate antigenic cartography manuscript by Rössler, Netzl, et al. 2024
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 25, 2024Nov 25, 2024

    • beast2-xml

      Public
      Python code to generate BEAST2 XML files
      Python
      •
      MIT License
      •5•18•5•0•Updated Nov 21, 2024Nov 21, 2024

    • dark-matter

      Public
      Virus discovery
      Python
      •
      MIT License
      •7•15•38•2•Updated Nov 18, 2024Nov 18, 2024

    • acmacs-build

      Public
      Makefile
      •
      MIT License
      •0•2•0•0•Updated Nov 5, 2024Nov 5, 2024

    • netzl_et_al2024

      Public
      JavaScript
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 31, 2024Oct 31, 2024

    • slurm-pipeline

      Public
      A Python class for scheduling SLURM jobs
      Python
      •
      MIT License
      •12•58•2•0•Updated Oct 26, 2024Oct 26, 2024

    • ncbi-taxonomy-database

      Public
      How to make a mysql or sqlite database of NCBI taxonomy data for use with the dark-matter lineage fetcher
      Shell
      •
      MIT License
      •2•7•1•0•Updated Oct 11, 2024Oct 11, 2024

    • seqdb-3

      Public
      Set of tools to build and query sequence database v3
      C++
      •
      MIT License
      •0•0•0•0•Updated Sep 22, 2024Sep 22, 2024

    • acmacs-virus

      Public
      Modules to handle virus and influenza related stuff, e.g. virus names, passages, reassortant information
      C++
      •
      MIT License
      •0•0•0•0•Updated Sep 22, 2024Sep 22, 2024

    • acmacs-map-draw

      Public
      Drawing antigenic maps
      C++
      •
      MIT License
      •0•0•0•0•Updated Sep 22, 2024Sep 22, 2024

    • acmacs-draw

      Public
      Drawing on an image
      C++
      •
      MIT License
      •0•0•0•0•Updated Sep 22, 2024Sep 22, 2024

    • acmacs-chart-2

      Public
      Accessing chart data
      C++
      •
      MIT License
      •0•0•0•0•Updated Sep 22, 2024Sep 22, 2024

    • acmacs-tal

      Public
      Tree et al.
      C++
      •
      MIT License
      •0•0•0•0•Updated Sep 22, 2024Sep 22, 2024

    • acmacs-whocc

      Public
      Programs and scripts for WHO CCs chains
      Python
      •
      MIT License
      •1•0•0•0•Updated Sep 22, 2024Sep 22, 2024

    • antigenic_cartography_introduction

      Public
      HTML
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Sep 2, 2024Sep 2, 2024

    • midtools

      Public
      Multiple Infection Detection - Python for detecting multiple infections from sequence reads and trying to pick them apart
      Python
      •0•1•0•0•Updated Jun 29, 2024Jun 29, 2024

    • Racmacs

      Public
      Racmacs R package for performing antigenic cartography
      JavaScript
      •
      GNU Affero General Public License v3.0
      •9•20•35•1•Updated Jun 27, 2024Jun 27, 2024

    • comparison_of_sars-cov-2_antigenic_characteristics

      Public
      R
      •1•0•0•0•Updated Apr 9, 2024Apr 9, 2024

    • roessler_netzl_et_al2023a

      Public
      This repository holds the code for the species comparison between human and hamster SARS-CoV-2 neutralisation data, published by Rössler, Netzl et al.
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Mar 5, 2024Mar 5, 2024

    • ablandscapes

      Public
      An R package for making antibody landscapes
      R
      •
      GNU Affero General Public License v3.0
      •4•2•1•0•Updated Feb 28, 2024Feb 28, 2024

    • acmacs-base

      Public
      Scripts and utilities for acmacs-d modules
      C++
      •
      MIT License
      •0•0•0•0•Updated Sep 24, 2023Sep 24, 2023

    • roessler_netzl_et_al2023

      Public
      This repository contains the code for the manuscript "Characterizing SARS-CoV-2 neutralization profiles after bivalent boosting using antigenic cartography" by Annika Rössler, Antonia Netzl, et. al., 2023
      JavaScript
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Aug 21, 2023Aug 21, 2023

    • mapping_SARS-CoV-2_antigenic_relationships_and_serological_responses

      Public
      HTML
      •2•1•0•0•Updated Jul 29, 2023Jul 29, 2023

    • branche_et_al2023

      Public
      This repository contains the code to construct antibody landscapes for the CoVAIL clinical trial.
      HTML
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jul 21, 2023Jul 21, 2023

    • roessler_netzl_et_al2022

      Public
      Code repository for "BA.2 and BA.5 omicron differ immunologically from both BA.1 omicron and pre-omicron variants" by Roessler, A., Netzl, A., et al.
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 19, 2023May 19, 2023

    • lispmds

      Public
      LispMDS
      Common Lisp
      •1•1•7•1•Updated May 15, 2023May 15, 2023

    • acmacs-py

      Public
      Python module for acmacs
      Python
      •
      MIT License
      •0•1•0•0•Updated Dec 10, 2022Dec 10, 2022

    • acmacs-whocc-data

      Public
      Data files with WHO CC related data and library to read them
      C++
      •
      MIT License
      •0•0•0•0•Updated Oct 27, 2022Oct 27, 2022

    • seqgen

      Public
      Python code for generating sequences in FASTA format
      Python
      •
      MIT License
      •1•0•0•1•Updated Oct 4, 2022Oct 4, 2022

    • hidb-5

      Public
      HiDb maker
      C++
      •
      MIT License
      •0•0•0•0•Updated Jul 21, 2022Jul 21, 2022