Chuck build  over 9 years ago

Commit id: 20e723112732a6fd4f11ce4b11a4a09681ac1c8d

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\citation{23193283}  \citation{23955772}  \citation{22543370}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{2.0}.4}}PCR}{4}{subsubsection.2.0.4}}  \@writefile{toc}{\contentsline {subsection}{\numberline {{2.1}}Sequence Quality Control and Analysis}{4}{subsection.2.1}}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{2.1}.1}}Quality Control}{4}{subsubsection.2.1.1}}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{2.1}.2}}Taxonomic annotations}{4}{subsubsection.2.1.2}}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{2.1}.3}}Clustering}{4}{subsubsection.2.1.3}}  \citation{17708774}  \citation{24699258}  \citation{vegan}  \citation{Wickham_2009}  \citation{vegan}  \citation{vegan}  \@writefile{toc}{\contentsline {subsection}{\numberline {{2.1}}Sequence Quality Control and Analysis}{4}{subsection.2.1}}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{2.1}.1}}Quality Control}{4}{subsubsection.2.1.1}}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{2.1}.2}}Taxonomic annotations}{4}{subsubsection.2.1.2}}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{2.1}.3}}Clustering}{4}{subsubsection.2.1.3}}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{2.1}.4}}Alpha and Beta diversity analyses}{4}{subsubsection.2.1.4}}  \citation{Love_2014}  \citation{24699258}  \citation{24699258}  \citation{24699258}  \citation{Love_2014}  \citation{citeulike:1042553}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{2.1}.4}}Alpha and Beta diversity analyses}{5}{subsubsection.2.1.4}}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{2.1}.5}}Identifying Enriched OTUs}{5}{subsubsection.2.1.5}}  \@writefile{toc}{\contentsline {section}{\numberline {3}Results}{5}{section.3}} {3}Results}{6}{section.3}}  \@writefile{toc}{\contentsline {subsection}{\numberline {{3.1}}Bulk community characteristics}{5}{subsection.3.1}} characteristics}{6}{subsection.3.1}}  \@writefile{toc}{\contentsline {subsection}{\numberline {{3.2}}Planktonic and biofilm community structure}{6}{subsection.3.2}}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{3.2}.1}}Alpha diversity}{6}{subsubsection.3.2.1}}  \@writefile{toc}{\contentsline {subsubsection}{\numberline {{{3.2}.2}}Community membership biofilm versus plankton}{6}{subsubsection.3.2.2}} 

\@writefile{toc}{\contentsline {subsubsection}{\numberline {{{3.2}.3}}Community membership high C}{7}{subsubsection.3.2.3}}  \@writefile{toc}{\contentsline {section}{\numberline {4}Discussion}{7}{section.4}}  \@writefile{toc}{\contentsline {subsection}{\numberline {{4.1}}Biomass Pool Size}{7}{subsection.4.1}}  \@writefile{toc}{\contentsline {subsection}{\numberline {{4.2}}Biofilm and Plankton Alpha and Beta Diversity}{7}{subsection.4.2}} Diversity}{8}{subsection.4.2}}  \citation{22237539}  \citation{22237539}  \citation{22237539} 

\bibcite{Cho_2004}{{10}{2004}{{\textbf {Cho and Giovannoni}}}{{}}}  \bibcite{Connon_2002}{{11}{2002}{{\textbf {Connon and Giovannoni}}}{{}}}  \bibcite{Cotner_2002}{{12}{2002}{{\textbf {Cotner and Biddanda}}}{{}}}  \@writefile{toc}{\contentsline {section}{\numberline {5}Acknowledgements}{11}{section.5}}  \bibcite{COTNER_1992}{{13}{1992}{{\textbf {Cotner and Wetzel}}}{{}}}  \bibcite{22378536}{{14}{2012}{{\textbf {Crump et~al.}}}{{\textbf {Crump, Amaral-Zettler, and Kling}}}}  \bibcite{16845035}{{15}{2006}{{\textbf {DeSantis et~al.}}}{{\textbf {DeSantis, Hugenholtz, Keller, Brodie, Larsen, Piceno et~al.}}}}  \bibcite{20709691}{{16}{2010}{{\textbf {Edgar}}}{{}}}  \bibcite{23955772}{{17}{2013}{{\textbf {Edgar}}}{{}}}  \@writefile{toc}{\contentsline {section}{\numberline {5}Acknowledgements}{11}{section.5}}  \bibcite{21700674}{{18}{2011}{{\textbf {Edgar et~al.}}}{{\textbf {Edgar, Haas, Clemente, Quince, and Knight}}}}  \bibcite{hoedl_2011}{{19}{2011}{{\textbf {Hödl et~al.}}}{{\textbf {Hödl, Hödl, Wörman, Singer, Besemer, and Battin}}}}  \bibcite{Jackson_2001}{{20}{2001}{{\textbf {Jackson et~al.}}}{{\textbf {Jackson, Churchill, and Roden}}}} 

\bibcite{Stets_2008b}{{37}{2008b}{{\textbf {Stets and Cotner}}}{{}}}  \bibcite{Wetzel_2000}{{38}{2000}{{\textbf {Wetzel and Likens}}}{{}}}  \bibcite{Wickham_2009}{{39}{2009}{{\textbf {Wickham}}}{{}}}  \global\@namedef{@lastpage@}{13}  \newlabel{fig:conceptual}{{1}{13}{Figures\relax }{figure.1}{}}  \newlabel{Tab:01}{{1}{14}{Acknowledgements\relax }{table.1}{}}  \global\@namedef{@lastpage@}{15}  \newlabel{fig:pool_size}{{2}{15}{Figures\relax }{figure.2}{}}  \newlabel{fig:microscope}{{3}{16}{Figures\relax \newlabel{fig:rarefaction}{{3}{16}{Figures\relax  }{figure.3}{}} \newlabel{fig:rarefaction}{{4}{17}{Figures\relax \newlabel{fig:pcoa}{{4}{17}{Figures\relax  }{figure.4}{}} \newlabel{fig:pcoa}{{5}{18}{Figures\relax \newlabel{fig:l2fc}{{5}{18}{Figures\relax  }{figure.5}{}} \newlabel{fig:l2fc}{{6}{19}{Figures\relax \newlabel{fig:rank_abund}{{6}{19}{Figures\relax  }{figure.6}{}} \newlabel{fig:rank_abund}{{7}{20}{Figures\relax \newlabel{fig:integ_rarefaction}{{7}{20}{Figures\relax  }{figure.7}{}}\newlabel{fig:integ_rarefaction}{{8}{21}{Figures\relax }{figure.8}{}}         

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