Bactinspector

A package to determine the most probable species based on sequence in fasta/fastq files using refseq and Mash (https://mash.readthedocs.io/en/latest/index.html) It will count the species of the top ref seq mash matches and report most frequent. determine the closest reference in refseq to a set of fasta/fastq files The PyPi package is called BactInspectorMax since my original BactInspector asked for the path to a sketch of refseq genomes. In May 2019 a new curated mash sketch of complete bacterial refseq genome was created and bundled into the package. This required a special request to increase the PyPi package limit, hence the Max. The command is still bactinspector however. Data The data bundled into bactinspector are the complete bacterial refseq genomes from May 2019. The species assignations have been corrected by changing species where the majority does not match the species described within the refseq info found here and the excellent Bacsort resource from Ryan Wic