Data from: Pan-genome and phylogeny of Bacillus cereus sensu lato

Bazinet AL

Date Published: July 31, 2017

DOI: http://dx.doi.org/10.5061/dryad.dm82j

 

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Title B. cereus sensu lato HaMStR databases
Downloaded 5 times
Description Contains the four B. cereus s. l. HaMStR databases used in this study. Each HaMStR database contains BLAST databases, FASTA files, protein and CDS alignments, and HMMs.
Download B_cereus_sensu_lato_HaMStR_dbs.zip (353.1 Mb)
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Title B. cereus sensu lato data matrices
Downloaded 6 times
Description Contains the Bacillus Mash distance matrix, the B. cereus s. l. pan-genome binary data matrix, and the six B. cereus s. l. concatenated data matrices used in the study along with associated RAxML partition specifications.
Download B_cereus_sensu_lato_data_matrices.zip (996.7 Mb)
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Title B. cereus sensu lato phylogenetic trees
Downloaded 3 times
Description Contains the Bacillus FastME tree, the B. cereus s. l. accessory binary tree produced by Roary, the RAxML maximum likelihood trees (ML_1–ML_8), and the PAUP maximum parsimony tree (MP_1).
Download B_cereus_sensu_lato_trees.zip (145.0 Kb)
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Title create_data_matrix Perl script
Downloaded 7 times
Description The create_data_matrix Perl script aligns orthologous protein groups produced by HaMStR, converts alignments to CDS equivalents, applies the consensus method, and concatenates individual gene alignments to produce the final data matrix.
Download create_data_matrix.pl (27.38 Kb)
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When using this data, please cite the original publication:

Bazinet AL (2017) Pan-genome and phylogeny of Bacillus cereus sensu lato. BMC Evolutionary Biology 17: 176. http://dx.doi.org/10.1186/s12862-017-1020-1

Additionally, please cite the Dryad data package:

Bazinet AL (2017) Data from: Pan-genome and phylogeny of Bacillus cereus sensu lato. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.dm82j
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