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@SegataLab

Segata Lab

The computational metagenomics lab at the Dep. CIBIO, University of Trento

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  1. lefse lefse Public

    Python 78 46

  2. panphlan panphlan Public

    PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples

    Python 43 6

  3. metaml metaml Public

    Python 26 13

  4. cmseq cmseq Public

    Set of utilities on sequences and BAM files

    Python 25 9

  5. cFMD cFMD Public

    Public repository for cFMD - curatedFoodMetagenomicData

    20 1

  6. viromeqc viromeqc Public

    ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichment score for each virome. The score is calculated with respec…

    Python 18 1

Repositories

Showing 10 of 24 repositories
  • metaml Public
    SegataLab/metaml’s past year of commit activity
    Python 26 13 0 0 Updated Sep 5, 2024
  • cFMD Public

    Public repository for cFMD - curatedFoodMetagenomicData

    SegataLab/cFMD’s past year of commit activity
    20 CC-BY-4.0 1 0 0 Updated Aug 30, 2024
  • diet_habits_microbiome_association Public

    Repository with the command lines used to generate the microbiome meta-analyses and the microbiome machine learning in the vegetarian, vegan, omnivore diet comparison paper

    SegataLab/diet_habits_microbiome_association’s past year of commit activity
    Shell 0 0 0 0 Updated Aug 12, 2024
  • preprocessing Public

    Raw sequence metagenomic reads pre-processing: trimming, QC, and host contamination

    SegataLab/preprocessing’s past year of commit activity
    Python 9 MIT 3 2 1 Updated Jul 24, 2024
  • inverse_var_weight Public

    Object caller for stochastically dependent and independent effect-size and meta-analysis of correlations in Python

    SegataLab/inverse_var_weight’s past year of commit activity
    Python 0 0 0 0 Updated May 28, 2024
  • lefse Public
    SegataLab/lefse’s past year of commit activity
    Python 78 MIT 46 21 1 Updated May 22, 2024
  • MASTER-WP5-pipelines Public
    SegataLab/MASTER-WP5-pipelines’s past year of commit activity
    Python 4 5 0 1 Updated Jan 8, 2024
  • panphlan Public

    PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples

    SegataLab/panphlan’s past year of commit activity
    Python 43 MIT 6 11 0 Updated Oct 3, 2023
  • metamlst Public

    MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.

    SegataLab/metamlst’s past year of commit activity
    Python 12 MIT 1 1 0 Updated Mar 2, 2023
  • viromedb Public

    Scripts for the ViromeDB project

    SegataLab/viromedb’s past year of commit activity
    Python 2 0 0 0 Updated Feb 13, 2023
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