@article{10.1093/nar/gkac298,
	author = {Schmartz, Georges P and Hirsch, Pascal and Amand, Jérémy and Dastbaz, Jan and Fehlmann, Tobias and Kern, Fabian and Müller, Rolf and Keller, Andreas},
	title = "{BusyBee Web: towards comprehensive and differential composition-based metagenomic binning}",
	journal = {Nucleic Acids Research},
	year = {2022},
	month = {04},
	abstract = "{Despite recent methodology and reference database improvements for taxonomic profiling tools, metagenomic assembly and genomic binning remain important pillars of metagenomic analysis workflows. In case reference information is lacking, genomic binning is considered to be a state-of-the-art method in mixed culture metagenomic data analysis. In this light, our previously published tool BusyBee Web implements a composition-based binning method efficient enough to function as a rapid online utility. Handling assembled contigs and long nanopore generated reads alike, the webserver provides a wide range of supplementary annotations and visualizations. Half a decade after the initial publication, we revisited existing functionality, added comprehensive visualizations, and increased the number of data analysis customization options for further experimentation. The webserver now allows for visualization-supported differential analysis of samples, which is computationally expensive and typically only performed in coverage-based binning methods. Further, users may now optionally check their uploaded samples for plasmid sequences using PLSDB as a reference database. Lastly, a new application programming interface with a supporting python package was implemented, to allow power users fully automated access to the resource and integration into existing workflows. The webserver is freely available under: https://www.ccb.uni-saarland.de/busybee.}",
	issn = {0305-1048},
	doi = {10.1093/nar/gkac298},
	url = {https://doi.org/10.1093/nar/gkac298},
}

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P","Hirsch, P.","Amand, J.","Dastbaz, J.","Fehlmann, T.","Kern, F.","Müller, R.","Keller, A."],"bibdata":{"bibtype":"article","type":"article","author":[{"propositions":[],"lastnames":["Schmartz"],"firstnames":["Georges","P"],"suffixes":[]},{"propositions":[],"lastnames":["Hirsch"],"firstnames":["Pascal"],"suffixes":[]},{"propositions":[],"lastnames":["Amand"],"firstnames":["Jérémy"],"suffixes":[]},{"propositions":[],"lastnames":["Dastbaz"],"firstnames":["Jan"],"suffixes":[]},{"propositions":[],"lastnames":["Fehlmann"],"firstnames":["Tobias"],"suffixes":[]},{"propositions":[],"lastnames":["Kern"],"firstnames":["Fabian"],"suffixes":[]},{"propositions":[],"lastnames":["Müller"],"firstnames":["Rolf"],"suffixes":[]},{"propositions":[],"lastnames":["Keller"],"firstnames":["Andreas"],"suffixes":[]}],"title":"BusyBee Web: towards comprehensive and differential composition-based metagenomic binning","journal":"Nucleic Acids Research","year":"2022","month":"04","abstract":"Despite recent methodology and reference database improvements for taxonomic profiling tools, metagenomic assembly and genomic binning remain important pillars of metagenomic analysis workflows. In case reference information is lacking, genomic binning is considered to be a state-of-the-art method in mixed culture metagenomic data analysis. In this light, our previously published tool BusyBee Web implements a composition-based binning method efficient enough to function as a rapid online utility. Handling assembled contigs and long nanopore generated reads alike, the webserver provides a wide range of supplementary annotations and visualizations. Half a decade after the initial publication, we revisited existing functionality, added comprehensive visualizations, and increased the number of data analysis customization options for further experimentation. The webserver now allows for visualization-supported differential analysis of samples, which is computationally expensive and typically only performed in coverage-based binning methods. Further, users may now optionally check their uploaded samples for plasmid sequences using PLSDB as a reference database. Lastly, a new application programming interface with a supporting python package was implemented, to allow power users fully automated access to the resource and integration into existing workflows. The webserver is freely available under: https://www.ccb.uni-saarland.de/busybee.","issn":"0305-1048","doi":"10.1093/nar/gkac298","url":"https://doi.org/10.1093/nar/gkac298","bibtex":"@article{10.1093/nar/gkac298,\n\tauthor = {Schmartz, Georges P and Hirsch, Pascal and Amand, Jérémy and Dastbaz, Jan and Fehlmann, Tobias and Kern, Fabian and Müller, Rolf and Keller, Andreas},\n\ttitle = \"{BusyBee Web: towards comprehensive and differential composition-based metagenomic binning}\",\n\tjournal = {Nucleic Acids Research},\n\tyear = {2022},\n\tmonth = {04},\n\tabstract = \"{Despite recent methodology and reference database improvements for taxonomic profiling tools, metagenomic assembly and genomic binning remain important pillars of metagenomic analysis workflows. In case reference information is lacking, genomic binning is considered to be a state-of-the-art method in mixed culture metagenomic data analysis. In this light, our previously published tool BusyBee Web implements a composition-based binning method efficient enough to function as a rapid online utility. Handling assembled contigs and long nanopore generated reads alike, the webserver provides a wide range of supplementary annotations and visualizations. Half a decade after the initial publication, we revisited existing functionality, added comprehensive visualizations, and increased the number of data analysis customization options for further experimentation. The webserver now allows for visualization-supported differential analysis of samples, which is computationally expensive and typically only performed in coverage-based binning methods. Further, users may now optionally check their uploaded samples for plasmid sequences using PLSDB as a reference database. 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