===========================================================
                                      .___ __  __   
          _________________  __ __  __| _/|__|/  |_ 
         / ___\_` __ \__  \ |  |  \/ __ | | \\_  __\
        / /_/  >  | \// __ \|  |  / /_/ | |  ||  |  
        \___  /|__|  (____  /____/\____ | |__||__|  
       /_____/            \/           \/           
              grep rough audit - static analysis tool
                  v2.8 written by @Wireghoul
=================================[justanotherhacker.com]===
r-bioc-metagenomeseq-1.32.0/R/fitZig.R-4-#' $f_count$ fits.  Maximum-likelihood estimates are approximated using the EM
r-bioc-metagenomeseq-1.32.0/R/fitZig.R:5:#' algorithm where we treat mixture membership $delta_ij = 1$ if $y_ij$ is
r-bioc-metagenomeseq-1.32.0/R/fitZig.R-6-#' generated from the zero point mass as latent indicator variables. The
##############################################
r-bioc-metagenomeseq-1.32.0/inst/doc/fitTimeSeries.Rnw-50-
r-bioc-metagenomeseq-1.32.0/inst/doc/fitTimeSeries.Rnw:51:Our goal is to identify intervals where the absolute difference between two groups $\eta_d(t)=f_1(t, \cdot)-f_2(t, \cdot)$ is large, that is, regions, $R_{t_1,t_2}$, where:
r-bioc-metagenomeseq-1.32.0/inst/doc/fitTimeSeries.Rnw-52-$R_{t_1,t_2}=
##############################################
r-bioc-metagenomeseq-1.32.0/inst/doc/metagenomeSeq.Rnw-704-Maximum-likelihood estimates are approximated using an EM algorithm,
r-bioc-metagenomeseq-1.32.0/inst/doc/metagenomeSeq.Rnw:705:where we treat mixture membership $\Delta_{ij}=1$ if $y_{ij}$ is
r-bioc-metagenomeseq-1.32.0/inst/doc/metagenomeSeq.Rnw-706-generated from the zero point mass as latent indicator variables\cite{EM}. We make use of an EM algorithm to account for the linear relationship between sparsity and depth of coverage. The user can specify within the \texttt{fitZig} function a non-default zero model that accounts for more than simply the depth of coverage (e.g. country, age, any metadata associated with sparsity, etc.).
##############################################
r-bioc-metagenomeseq-1.32.0/man/fitZig.Rd-54-$f_count$ fits.  Maximum-likelihood estimates are approximated using the EM
r-bioc-metagenomeseq-1.32.0/man/fitZig.Rd:55:algorithm where we treat mixture membership $delta_ij = 1$ if $y_ij$ is
r-bioc-metagenomeseq-1.32.0/man/fitZig.Rd-56-generated from the zero point mass as latent indicator variables. The
##############################################
r-bioc-metagenomeseq-1.32.0/vignettes/fitTimeSeries.Rnw-50-
r-bioc-metagenomeseq-1.32.0/vignettes/fitTimeSeries.Rnw:51:Our goal is to identify intervals where the absolute difference between two groups $\eta_d(t)=f_1(t, \cdot)-f_2(t, \cdot)$ is large, that is, regions, $R_{t_1,t_2}$, where:
r-bioc-metagenomeseq-1.32.0/vignettes/fitTimeSeries.Rnw-52-$R_{t_1,t_2}=
##############################################
r-bioc-metagenomeseq-1.32.0/vignettes/metagenomeSeq.Rnw-704-Maximum-likelihood estimates are approximated using an EM algorithm,
r-bioc-metagenomeseq-1.32.0/vignettes/metagenomeSeq.Rnw:705:where we treat mixture membership $\Delta_{ij}=1$ if $y_{ij}$ is
r-bioc-metagenomeseq-1.32.0/vignettes/metagenomeSeq.Rnw-706-generated from the zero point mass as latent indicator variables\cite{EM}. We make use of an EM algorithm to account for the linear relationship between sparsity and depth of coverage. The user can specify within the \texttt{fitZig} function a non-default zero model that accounts for more than simply the depth of coverage (e.g. country, age, any metadata associated with sparsity, etc.).
##############################################
r-bioc-metagenomeseq-1.32.0/debian/tests/run-unit-test-3-oname=metagenomeSeq
r-bioc-metagenomeseq-1.32.0/debian/tests/run-unit-test:4:pkg=r-bioc-`echo $oname | tr '[A-Z]' '[a-z]'`
r-bioc-metagenomeseq-1.32.0/debian/tests/run-unit-test-5-
r-bioc-metagenomeseq-1.32.0/debian/tests/run-unit-test-6-if [ "$AUTOPKGTEST_TMP" = "" ] ; then
r-bioc-metagenomeseq-1.32.0/debian/tests/run-unit-test:7:  AUTOPKGTEST_TMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
r-bioc-metagenomeseq-1.32.0/debian/tests/run-unit-test-8-  trap "rm -rf $AUTOPKGTEST_TMP" 0 INT QUIT ABRT PIPE TERM