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1. panaroo panaroo Public

   An updated pipeline for pangenome investigation

   Python 375 41

2. panstripe panstripe Public

   post processing of bacterial pangenome gene presence/absence matrices

   R 68 6

3. fastbaps fastbaps Public

   A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data

   R 72 8

4. tracs tracs Public

   Fast pairwise transmission inference from single genome and/or metagenomic data

   Python 39 5

5. rhierbaps rhierbaps Public

   rhierbaps: R implementation of hierBAPS

   R 36 3

6. pairsnp pairsnp Public

   A set of scripts for calculating pairwise SNP distance

   45 7