Scripts, parameters, and versions of the software tools used to complete the genome of JB001.
Sample scripts, including the parameters used in the actual genome assembly, are located in the G6-genome-scripts.sh file. If you find this information useful, please cite the publications:
Baker, J.L. A complete genome sequence of strain JB001, a member of Saccharibacteria clade G6 (“Ca. Nanogingivalaceae”). Microbiology Resource Announcements. 2021 Jun;10(23):e0051721 doi: 10.1128/MRA.00517-21
Baker, J.L. Complete genomes of clade G6 Saccharibacteria suggest a divergent ecological niche and lifestyle. mSphere. 2021 Aug 11; e00530-21. doi: https://doi.org/10.1128/mSphere.00530-21
Tool versions:
minimap2 2.17-r941
samtools 1.7
Anvi'o hope (v7-dev)
Unicycler v0.4.8
flye 2.8-b1674
megablast 2.2.26
Trycycler v0.3.0
medaka 1.0.3
Pilon version 1.23
circlator 1.5.5
bowtie2 2.3.4.1