Files in ExomeDepth

Calls Copy Number Variants from Targeted Sequence Data

MD5

NAMESPACE

DESCRIPTION

R/class_definition.R R/optimize_reference_set.R R/countBamInGranges.R R/tools.R R/annotate_extra.R R/zzz.R R/plot_CNVs_method.R

src/elementary.c

src/eval.h

src/ExomeDepth_init.c

src/gsl_sf_log.h

src/log1p.c

src/gsl_math.h

src/ldfrexp.c

src/fdiv.c

src/gsl_machine.h

src/gsl_precision.h

src/VP_zeta.c

src/VP_log.c

src/gsl_types.h

src/gsl_complex.h

src/check.h

src/gsl_pow_int.h

src/hypot.c

src/invhyp.c

src/exp.c

src/gsl_errno.h

src/VP_infnan.c

src/math.c

src/gsl_sf_exp.h

src/beta.c

src/stream.c

src/gsl_inline.h

src/CNV_estimate.cpp

src/error.h

src/hmm.cpp

src/VP_psi.c

src/gsl_sf_zeta.h

src/VP_gamma.c

src/gsl_sf_trig.h

src/gsl_sf_psi.h

src/config.h

src/gsl_complex_math.h

src/gsl_sf_result.h

src/gsl_sf_elementary.h

src/error.c

src/VP_trig.c

src/gsl_sys.h

src/gsl_sf_pow_int.h

src/gsl_nan.h

src/gsl_sf_gamma.h

src/gsl_message.h

src/chebyshev.h

inst/AUTHORS

inst/doc/ExomeDepth-vignette.pdf inst/doc/ExomeDepth-vignette.R

inst/doc/ExomeDepth-vignette.Rnw

inst/extdata/minimum_1_25630000_25650000.bam.bai

inst/extdata/minimum_1_25630000_25650000.bam

build/vignette.rds

vignettes/ExomeDepth-vignette.Rnw

data/datalist

data/exons.hg19.X.RData

data/exons.hg19.RData

data/ExomeCount.RData

data/genes.hg19.RData

data/Conrad.hg19.RData

man/genes.hg19.Rd man/count.everted.reads.Rd man/Conrad.hg19.common.CNVs.Rd man/AnnotateExtra-ExomeDepth-method.Rd man/get_loglike_matrix.Rd man/plot-methods.Rd man/ExomeCount.Rd man/qbetabinom.ab.Rd man/qbetabinom.Rd man/get.power.betabinom.Rd man/initialize-ExomeDepth-method.Rd man/TestCNV-ExomeDepth-method.Rd man/ExomeDepth-class.Rd man/select.reference.set.Rd man/exons.hg19.Rd man/C_hmm.Rd man/viterbi.hmm.Rd man/getBamCounts.Rd man/countBam.everted.Rd man/CallCNVs-ExomeDepth-method.Rd man/somatic.CNV.call.Rd man/countBamInGRanges.exomeDepth.Rd man/exons.hg19.X.Rd

ExomeDepth documentation built on Nov. 3, 2022, 5:05 p.m.