Segata Lab

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

PanPhlAn_pangenome_exporter Public

Python 3 1 1 0 Updated Apr 12, 2022
lefse Public

Python 40 MIT 33 9 1 Updated Feb 15, 2022
export2graphlan Public
Conversion software tool for producing both annotation and tree files for GraPhlAn

Python 6 MIT 4 2 0 Updated Feb 2, 2022
preprocessing Public
Raw sequence metagenomic reads pre-processing: trimming, QC, and host contamination

Python 2 MIT 1 0 0 Updated Jan 26, 2022
panphlan Public
PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples

Python 25 MIT 6 5 0 Updated Nov 3, 2021
cmseq Public
Set of utilities on sequences and BAM files

Python 17 MIT 5 2 1 Updated Oct 27, 2021
metaclock Public
A python package for assisting to reconstruct time-tree at the strain level using contemporary and ancient metagenomes.

Python 1 AGPL-3.0 0 0 0 Updated Sep 17, 2021
calculus_study_Lena_2021 Public
This repo contains scripts for reproducing results reported in the calculus study, Lena et al., 2021

Python 0 0 0 0 Updated Jun 23, 2021
Msmithii_molecular_clocking Public
Code available for Marsha et al. 2021 - "Reconstruction of ancient microbial genomes from the human gut"

Python 0 0 0 0 Updated Mar 17, 2021
metamlst Public
MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.

Python 6 MIT 0 0 0 Updated Jan 18, 2021

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