Popular repositories Loading

1. MGEfinder MGEfinder Public

   A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.

   Python 110 16

2. lathe lathe Public

   A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing

   Python 69 18

3. kraken2_classification kraken2_classification Public

   Snakemake workflow for metagenomic classification with Kraken2

   Python 65 16

4. phanta phanta Public

   Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes

   Python 59 9

5. bhattlab_workflows bhattlab_workflows Public

   Computational workflows for metagenomics tasks, by the Bhatt lab

   Python 45 15

6. StrainSifter StrainSifter Public

   A straightforward bioinformatic pipeline for detecting a bacterial strain in one or more metagenome(s).

   Python 19 3