ExomeDepth: Calls Copy Number Variants from Targeted Sequence Data

Calls copy number variants (CNVs) from targeted sequence data, typically exome sequencing experiments designed to identify the genetic basis of Mendelian disorders.

AuthorVincent Plagnol
Date of publication2016-05-15 09:48:08
MaintainerVincent Plagnol <v.plagnol@ucl.ac.uk>
LicenseGPL-3
Version1.1.10

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Files in this package

ExomeDepth
ExomeDepth/inst
ExomeDepth/inst/doc
ExomeDepth/inst/doc/ExomeDepth-vignette.R
ExomeDepth/inst/doc/ExomeDepth-vignette.Rnw
ExomeDepth/inst/doc/ExomeDepth-vignette.pdf
ExomeDepth/src
ExomeDepth/src/VP_gamma.c
ExomeDepth/src/invhyp.c
ExomeDepth/src/chebyshev.h
ExomeDepth/src/gsl_math.h
ExomeDepth/src/gsl_nan.h
ExomeDepth/src/hmm.cpp
ExomeDepth/src/gsl_sf_trig.h
ExomeDepth/src/gsl_sf_log.h
ExomeDepth/src/VP_zeta.c
ExomeDepth/src/gsl_message.h
ExomeDepth/src/gsl_complex.h
ExomeDepth/src/log1p.c
ExomeDepth/src/VP_infnan.c
ExomeDepth/src/gsl_sf_gamma.h
ExomeDepth/src/gsl_inline.h
ExomeDepth/src/error.h
ExomeDepth/src/gsl_sf_exp.h
ExomeDepth/src/gsl_sf_psi.h
ExomeDepth/src/hypot.c
ExomeDepth/src/CNV_estimate.cpp
ExomeDepth/src/beta.c
ExomeDepth/src/fdiv.c
ExomeDepth/src/gsl_precision.h
ExomeDepth/src/config.h
ExomeDepth/src/error.c
ExomeDepth/src/check.h
ExomeDepth/src/math.c
ExomeDepth/src/gsl_pow_int.h
ExomeDepth/src/gsl_sf_elementary.h
ExomeDepth/src/gsl_types.h
ExomeDepth/src/VP_trig.c
ExomeDepth/src/exp.c
ExomeDepth/src/eval.h
ExomeDepth/src/VP_psi.c
ExomeDepth/src/gsl_sf_zeta.h
ExomeDepth/src/stream.c
ExomeDepth/src/gsl_complex_math.h
ExomeDepth/src/gsl_sf_pow_int.h
ExomeDepth/src/gsl_sf_result.h
ExomeDepth/src/gsl_errno.h
ExomeDepth/src/gsl_sys.h
ExomeDepth/src/ldfrexp.c
ExomeDepth/src/gsl_machine.h
ExomeDepth/src/VP_log.c
ExomeDepth/src/elementary.c
ExomeDepth/NAMESPACE
ExomeDepth/data
ExomeDepth/data/genes.hg19.RData
ExomeDepth/data/Conrad.hg19.RData
ExomeDepth/data/exons.hg19.RData
ExomeDepth/data/datalist
ExomeDepth/data/exons.hg19.X.RData
ExomeDepth/data/ExomeCount.RData
ExomeDepth/R
ExomeDepth/R/plot_CNVs_method.R ExomeDepth/R/tools.R ExomeDepth/R/class_definition.R ExomeDepth/R/countBamInGranges.R ExomeDepth/R/zzz.R ExomeDepth/R/optimize_reference_set.R
ExomeDepth/vignettes
ExomeDepth/vignettes/.install_extras
ExomeDepth/vignettes/ExomeDepth-vignette.Rnw
ExomeDepth/MD5
ExomeDepth/build
ExomeDepth/build/vignette.rds
ExomeDepth/DESCRIPTION
ExomeDepth/man
ExomeDepth/man/exons.hg19.X.Rd ExomeDepth/man/plot.ExomeDepth.Rd ExomeDepth/man/countBamInGRanges.exomeDepth.Rd ExomeDepth/man/AnnotateExtra-methods.Rd ExomeDepth/man/somatic.CNV.call.Rd ExomeDepth/man/count.everted.reads.Rd ExomeDepth/man/exons.hg19.Rd ExomeDepth/man/getBamCounts.Rd ExomeDepth/man/initialize-methods.Rd ExomeDepth/man/CallCNVs.Rd ExomeDepth/man/ExomeDepth-class.Rd ExomeDepth/man/ExomeDepth-package.Rd ExomeDepth/man/AnnotateExtra.Rd ExomeDepth/man/Conrad.hg19.common.CNVs.Rd ExomeDepth/man/ExomeCount.Rd ExomeDepth/man/viterbi.hmm.Rd ExomeDepth/man/qbetabinom.Rd ExomeDepth/man/get.power.betabinom.Rd ExomeDepth/man/select.reference.set.Rd ExomeDepth/man/qbetabinom.ab.Rd ExomeDepth/man/genes.hg19.Rd ExomeDepth/man/countBam.everted.Rd ExomeDepth/man/TestCNV.Rd ExomeDepth/man/show-methods.Rd

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