This scripts and data collected in this repository correspond to the analysis performed to identify bacterial duplicated genes that led to the following papers.
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Duplicates in Escherichia coli genomes:
Gene duplications in the E. coli genome: common themes among pathotypes. Bernabeu M., Sánchez-Herrero JF., Huedo P., Prieto A., Hüttener M., Rozas J. and Juárez A. BMC Genomics 2019 20:313, https://doi.org/10.1186/s12864-019-5683-4
The source code to replicate these analysis corresponds to the GitHub release of this source code v1.0.
See an example workflow and additional bioinformatic details and parameters here.
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Duplicates in Gram positive cocci:
Gene Duplications in the Genomes of Staphylococci and Enterococci. Sanchez-Herrero JF., Bernabeu M., Prieto A., Hüttener M. and Juárez A. Front. Mol. Biosci. 2020 7:160. https://doi.org/10.3389/fmolb.2020.00160
The source code to replicate the analysis corresponds to the GitHub release of this source code v2.0.
See an example workflow and additional bioinformatic details and parameters here.