Creates graphs which fit the expected long-term neutral community composition derived by Sloan et al. (2006) to species abundance tables, such as OTU abundance tables obtained by 16S sequencing and Whole Genome Seqencing (WGS) + Kraken of microbial communities.
pip install -e.Modified by: Caitlin Guccione
Copyright
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Github: https://github.com/misieber/neufit
Theroy as described in [1]_. and [2]_.
Copyright (C) 2018 Michael Sieber (sieber.ecoevo.de)
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions
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1. Redistributions of source code must retain the above copyright
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2. Redistributions in binary form must reproduce the above
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THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
"AS IS" ANDANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT
OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED
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References
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.. [1] Sloan, W. T., Lunn, M., Woodcock, S., Head, I. M., Nee, S.
and Curtis, T. P. (2006). Quantifying the roles of immigration
and chance in shaping prokaryote community structure. Environmental
Microbiology, 8:732-740. https://doi.org/10.1111/j.1462-2920.2005.00956.x
.. [2] Sieber, M., Pita, L., Weiland-Bräuer, N., Dirksen, P., Wang, J.,
Mortzfeld, B., Franzenburg, S., Schmitz, R. A., Baines, J. F., Fraune,
S., Hentschel, U., Schulenburg, H., Bosch, T. C. G. and Traulsen, A.
(2018). The Neutral Metaorganism. bioRxiv. https://doi.org/10.1101/367243
NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.