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1. bacolonyzer bacolonyzer Public

   BaColonyzer is a software to quantify the fitness of bacterial cultures growing on solid agar, based on time-course pictures

   Python 5

2. CASPR CASPR Public

   CASPR pipeline.

   Shell 3 1

3. Pipeline_RNAseq Pipeline_RNAseq Public

   Pipeline to perform end-to-end RNAseq analyses

   Shell

4. Pipeline_MLST Pipeline_MLST Public

   Pipeline to assemble paired-end sequencing reads and scan resulting contig files against PubMLST typing schemes

   Shell

5. Pipeline_GenomeAnalysis Pipeline_GenomeAnalysis Public

   Pipeline to assemble paired-end sequencing reads, annotate the resulting contigs, compare the genome content across sequences and determine the variants (SNPs).

   Shell

6. Pipeline_HybridAssemblies Pipeline_HybridAssemblies Public

   Pipeline to create hybrid assemblies from long and short reads, annotate the genomes, compare the genome content across strains, determine the variants (SNPs), and identify the differentially locat…

   Shell