Introduction

Open Repository of Scripts and Resources for Nanopore (R1041 simplex/ R1041 duplex/ R941) and NGS Sequencing of Eight Bacteria.

Quick links

Scripts and pipeline

• The comparison of read quality is available here.
• The comparison of assembly quality is available here.
• The frequency stats of substitution type in assemblies are available here.
• The statistics of read numbers and proportions for correct and incorrect matches at error-prone sites are available here.
• The identification of potential modification sites in the genome is available here.
• The genome polishing script is available here.

Resource

• The published paper featuring the presented results can be accessed here.
• The raw data in fastq file is available here.
• The high-quality genome references are here (NCBI processing).
• The assembled drafts are available are here for Acinetobacter pittii.
• The assembled drafts are available are here for Bacillus cereus.
• The assembled drafts are available are here for Enterococcus faecium.
• The assembled drafts are available are here for Escherichia coli.
• The assembled drafts are available are here for Klebsiella pneumoniae.
• The assembled drafts are available are here for Pseudomonas aeruginosa.
• The assembled drafts are available are here for Salmonella enterica.
• The assembled drafts are available are here for Staphylococcus aureus.

Taxonomy

Kingdom	Phylum	Class	Order	Family	Genus	Species
Bacteria	Proteobacteria	Gammaproteobacteria	Pseudomonadales	Moraxellaceae	Acinetobacter	Acinetobacter pittii
Bacteria	Proteobacteria	Gammaproteobacteria	Enterobacterales	Enterobacteriaceae	Escherichia	Escherichia coli
Bacteria	Proteobacteria	Gammaproteobacteria	Enterobacterales	Enterobacteriaceae	Klebsiella	Klebsiella pneumoniae
Bacteria	Proteobacteria	Gammaproteobacteria	Pseudomonadales	Pseudomonadaceae	Pseudomonas	Pseudomonas aeruginosa
Bacteria	Proteobacteria	Gammaproteobacteria	Enterobacterales	Enterobacteriaceae	Salmonella	Salmonella enterica
Bacteria	Firmicutes	Bacilli	Bacillales	Bacillaceae	Bacillus	Bacillus cereus
Bacteria	Firmicutes	Bacilli	Lactobacillales	Enterococcaceae	Enterococcus	Enterococcus faecium
Bacteria	Firmicutes	Bacilli	Bacillales	Staphylococcaceae	Staphylococcus	Staphylococcus aureus