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    • CIBIV website
      HTML
      0200Updated Nov 18, 2024Nov 18, 2024
    • GuaCAMOLE

      Public
      GuaCAMOLE (Guanosine Cytosine Aware Metagenomic Opulence Least squares Estimation) algorithm for the efficient detection and removal of GC bias from metagenomic samples
      Python
      GNU Affero General Public License v3.0
      0100Updated Nov 12, 2024Nov 12, 2024
    • pyrganoid

      Public
      Python
      0100Updated Apr 30, 2024Apr 30, 2024
    • EvoNAPS

      Public
      EvoNAPS is a database providing input parameter settings for extensive sequence simulations to be used in phylogenetic studies.
      Python
      3100Updated Mar 13, 2024Mar 13, 2024
    • SANjar

      Public
      Simulates the deterministic and stochastic versions of the SAN model
      R
      0000Updated Feb 9, 2024Feb 9, 2024
    • Python
      MIT License
      4110Updated Mar 28, 2023Mar 28, 2023
    • A pipeline for the analysis of iPool-Seq data
      Python
      GNU Affero General Public License v3.0
      1000Updated Feb 11, 2022Feb 11, 2022
    • IQ-TREE

      Public archive
      Efficient phylogenomic software by maximum likelihood
      C++
      GNU General Public License v2.0
      44187942Updated Nov 4, 2021Nov 4, 2021
    • Correctly counting molecules using unique molecular identifiers (UMIs)
      TeX
      GNU Affero General Public License v3.0
      1920Updated Sep 24, 2021Sep 24, 2021
    • gwpcR

      Public
      Corrects UMI-based NGS data for phantom UMIs and lost molecules using a mechanistic model of UMI-based experiments
      R
      GNU Affero General Public License v3.0
      0300Updated Aug 23, 2021Aug 23, 2021
    • Task queue which keeps tracks of jobs and their exit status
      0000Updated Aug 13, 2021Aug 13, 2021
    • zone-net

      Public
      Neural Network predicting if the underlying tree of a given MSA is a Farris- or Felsenstein-like tree
      Python
      GNU Affero General Public License v3.0
      0100Updated May 20, 2020May 20, 2020
    • UMI-tools

      Public
      Tools for handling Unique Molecular Identifiers in NGS data sets
      Python
      MIT License
      190100Updated Feb 29, 2020Feb 29, 2020
    • Teaser

      Public
      A tool to benchmark mappers and different parameters within minutes
      HTML
      MIT License
      104340Updated Jul 2, 2019Jul 2, 2019
    • NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms while still outperforming them in terms of runtime. This allows analysing large scale datasets even with increased SNP rates or higher error rates (e.g. caused by specialized experimental protocols) and avoids bias…
      C++
      Other
      886241Updated May 15, 2019May 15, 2019
    • Conda recipes for the bioconda channel.
      Shell
      3.3k000Updated Feb 28, 2019Feb 28, 2019
    • PDA

      Public
      Phylogenetic Diversity Analyzer
      C++
      GNU General Public License v2.0
      3010Updated May 18, 2017May 18, 2017
    • CIBIV latex beamer template base on mtheme (https://github.com/matze/mtheme)
      TeX
      0100Updated Apr 28, 2017Apr 28, 2017
    • BODscore

      Public
      Scoring method for identified SNPs
      C
      0400Updated Sep 9, 2015Sep 9, 2015