Files in BitSeq
Transcript expression inference and differential expression analysis for RNA-seq data

LICENSE
configure.ac
DESCRIPTION
cleanup
NAMESPACE
configure
man/BitSeq-package.Rd man/getMeanVariance.Rd man/estimateHyperPar.Rd man/loadSamples.Rd man/estimateExpression.Rd man/estimateDE.Rd man/transcriptInfo.Rd man/parseAlignment.Rd man/getExpression.Rd man/transcriptInfoFile.Rd man/getDE.Rd man/getGeneExpression.Rd man/estimateVBExpression.Rd
vignettes/BitSeq.Rnw
build/vignette.rds
R/estimateExpression_call.R R/getWithinGeneExpression_call.R R/tri_methods.R R/parseAlignment_call.R R/estimateDE_call.R R/getExpression.R R/getDE.R R/estimateVBExpression_call.R R/getMeanVariance_call.R R/methods.R R/estimateHyperPar_call.R R/getGeneExpression_call.R
inst/CITATION
inst/NEWS
inst/doc/BitSeq.Rnw
inst/doc/BitSeq.pdf inst/doc/BitSeq.R
inst/extdata/data-c0b0.sam
inst/extdata/data-c0b1.rpkm
inst/extdata/data-c1b0.rpkm
inst/extdata/parameters1.txt
inst/extdata/ensSelect1.tr
inst/extdata/ensSelect1.fasta
inst/extdata/data-c1b1.rpkm
src/TranscriptSequence.h
src/lowess.h
src/estimateExpression.cpp
src/ArgumentParser.h
src/getGeneExpression.cpp
src/R_init_BitSeq.cpp
src/Makevars.win
src/MyTimer.h
src/common.cpp
src/estimateHyperPar.cpp
src/TagAlignments.h
src/PosteriorSamples.cpp
src/ArgumentParser.cpp
src/Sampler.h
src/CollapsedSampler.cpp
src/TranscriptInfo.h
src/estimateDE.cpp
src/getWithinGeneExpression.cpp
src/SimpleSparse.cpp
src/MyTimer.cpp
src/GibbsParameters.h
src/ReadDistribution.h
src/PosteriorSamples.h
src/common.h
src/TagAlignments.cpp
src/estimateVBExpression.cpp
src/Sampler.cpp
src/TranscriptInfo.cpp
src/TranscriptExpression.h
src/transposeFiles.cpp
src/misc.h
src/Makevars.win.in
src/GibbsParameters.cpp
src/ReadDistribution.cpp
src/VariationalBayes.cpp
src/GibbsSampler.h
src/lowess.cpp
src/FileHeader.h
src/TranscriptSequence.cpp
src/getVariance.cpp
src/GibbsSampler.cpp
src/misc.cpp
src/parseAlignment.cpp
src/TranscriptExpression.cpp
src/SimpleSparse.h
src/CollapsedSampler.h
src/transposeFiles.h
src/Makevars.common
src/FileHeader.cpp
src/VariationalBayes.h
src/Makevars.in
src/asa103/asa103.hpp
src/asa103/LICENSE.txt
src/boost/integer_fwd.hpp
src/boost/config.hpp
src/boost/integer.hpp
src/boost/limits.hpp
src/boost/static_assert.hpp
src/boost/non_type.hpp
src/boost/README
src/boost/LICENSE_1_0.txt
src/boost/current_function.hpp
src/boost/version.hpp
src/boost/cstdint.hpp
src/boost/integer_traits.hpp
src/boost/type.hpp
src/boost/assert.hpp
src/boost/config/select_stdlib_config.hpp
src/boost/config/warning_disable.hpp
src/boost/config/select_compiler_config.hpp
src/boost/config/auto_link.hpp
src/boost/config/suffix.hpp
src/boost/config/select_platform_config.hpp
src/boost/config/abi_prefix.hpp
src/boost/config/user.hpp
src/boost/config/posix_features.hpp
src/boost/config/requires_threads.hpp
src/boost/config/abi_suffix.hpp
src/boost/config/abi/msvc_prefix.hpp
src/boost/config/abi/borland_prefix.hpp
src/boost/config/abi/msvc_suffix.hpp
src/boost/config/abi/borland_suffix.hpp
src/boost/config/stdlib/libcomo.hpp
src/boost/config/stdlib/libstdcpp3.hpp
src/boost/config/stdlib/stlport.hpp
src/boost/config/stdlib/vacpp.hpp
src/boost/config/stdlib/sgi.hpp
src/boost/config/stdlib/libcpp.hpp
src/boost/config/stdlib/msl.hpp
src/boost/config/stdlib/modena.hpp
src/boost/config/stdlib/dinkumware.hpp
src/boost/config/stdlib/roguewave.hpp
src/boost/config/platform/linux.hpp
src/boost/config/platform/bsd.hpp
src/boost/config/platform/cray.hpp
src/boost/config/platform/vms.hpp
src/boost/config/platform/solaris.hpp
src/boost/config/platform/amigaos.hpp
src/boost/config/platform/qnxnto.hpp
src/boost/config/platform/win32.hpp
src/boost/config/platform/hpux.hpp
src/boost/config/platform/aix.hpp
src/boost/config/platform/irix.hpp
src/boost/config/platform/vxworks.hpp
src/boost/config/platform/symbian.hpp
src/boost/config/platform/cygwin.hpp
src/boost/config/platform/macos.hpp
src/boost/config/platform/beos.hpp
src/boost/config/no_tr1/memory.hpp
src/boost/config/no_tr1/complex.hpp
src/boost/config/no_tr1/functional.hpp
src/boost/config/no_tr1/cmath.hpp
src/boost/config/no_tr1/utility.hpp
src/boost/config/compiler/vacpp.hpp
src/boost/config/compiler/sgi_mipspro.hpp
src/boost/config/compiler/gcc_xml.hpp
src/boost/config/compiler/codegear.hpp
src/boost/config/compiler/kai.hpp
src/boost/config/compiler/clang.hpp
src/boost/config/compiler/digitalmars.hpp
src/boost/config/compiler/metrowerks.hpp
src/boost/config/compiler/gcc.hpp
src/boost/config/compiler/mpw.hpp
src/boost/config/compiler/hp_acc.hpp
src/boost/config/compiler/visualc.hpp
src/boost/config/compiler/nvcc.hpp
src/boost/config/compiler/cray.hpp
src/boost/config/compiler/common_edg.hpp
src/boost/config/compiler/pgi.hpp
src/boost/config/compiler/intel.hpp
src/boost/config/compiler/comeau.hpp
src/boost/config/compiler/sunpro_cc.hpp
src/boost/config/compiler/greenhills.hpp
src/boost/config/compiler/borland.hpp
src/boost/config/compiler/pathscale.hpp
src/boost/config/compiler/compaq_cxx.hpp
src/boost/random/normal_distribution.hpp
src/boost/random/gamma_distribution.hpp
src/boost/random/uniform_01.hpp
src/boost/random/mersenne_twister.hpp
src/boost/random/exponential_distribution.hpp
src/boost/random/detail/integer_log2.hpp
src/boost/random/detail/config.hpp
src/boost/random/detail/large_arithmetic.hpp
src/boost/random/detail/seed.hpp
src/boost/random/detail/enable_warnings.hpp
src/boost/random/detail/generator_bits.hpp
src/boost/random/detail/ptr_helper.hpp
src/boost/random/detail/operators.hpp
src/boost/random/detail/signed_unsigned_tools.hpp
src/boost/random/detail/generator_seed_seq.hpp
src/boost/random/detail/disable_warnings.hpp
src/boost/random/detail/const_mod.hpp
src/boost/random/detail/seed_impl.hpp
src/boost/mpl/bool.hpp
src/boost/mpl/int_fwd.hpp
src/boost/mpl/void_fwd.hpp
src/boost/mpl/bool_fwd.hpp
src/boost/mpl/if.hpp
src/boost/mpl/integral_c.hpp
src/boost/mpl/lambda_fwd.hpp
src/boost/mpl/integral_c_fwd.hpp
src/boost/mpl/int.hpp
src/boost/mpl/integral_c_tag.hpp
src/boost/mpl/limits/arity.hpp
src/boost/mpl/aux_/nttp_decl.hpp
src/boost/mpl/aux_/lambda_support.hpp
src/boost/mpl/aux_/static_cast.hpp
src/boost/mpl/aux_/template_arity_fwd.hpp
src/boost/mpl/aux_/na_spec.hpp
src/boost/mpl/aux_/value_wknd.hpp
src/boost/mpl/aux_/na.hpp
src/boost/mpl/aux_/integral_wrapper.hpp
src/boost/mpl/aux_/yes_no.hpp
src/boost/mpl/aux_/lambda_arity_param.hpp
src/boost/mpl/aux_/arity.hpp
src/boost/mpl/aux_/na_fwd.hpp
src/boost/mpl/aux_/adl_barrier.hpp
src/boost/mpl/aux_/preprocessor/tuple.hpp
src/boost/mpl/aux_/preprocessor/enum.hpp
src/boost/mpl/aux_/preprocessor/params.hpp
src/boost/mpl/aux_/preprocessor/filter_params.hpp
src/boost/mpl/aux_/preprocessor/sub.hpp
src/boost/mpl/aux_/preprocessor/def_params_tail.hpp
src/boost/mpl/aux_/config/arrays.hpp
src/boost/mpl/aux_/config/overload_resolution.hpp
src/boost/mpl/aux_/config/preprocessor.hpp
src/boost/mpl/aux_/config/dtp.hpp
src/boost/mpl/aux_/config/intel.hpp
src/boost/mpl/aux_/config/nttp.hpp
src/boost/mpl/aux_/config/ctps.hpp
src/boost/mpl/aux_/config/eti.hpp
src/boost/mpl/aux_/config/ttp.hpp
src/boost/mpl/aux_/config/integral.hpp
src/boost/mpl/aux_/config/static_constant.hpp
src/boost/mpl/aux_/config/msvc.hpp
src/boost/mpl/aux_/config/adl.hpp
src/boost/mpl/aux_/config/workaround.hpp
src/boost/mpl/aux_/config/gcc.hpp
src/boost/mpl/aux_/config/lambda.hpp
src/boost/utility/enable_if.hpp
src/boost/pending/integer_log2.hpp
src/boost/type_traits/is_member_pointer.hpp
src/boost/type_traits/remove_reference.hpp
src/boost/type_traits/is_polymorphic.hpp
src/boost/type_traits/is_array.hpp
src/boost/type_traits/broken_compiler_spec.hpp
src/boost/type_traits/is_class.hpp
src/boost/type_traits/is_pointer.hpp
src/boost/type_traits/is_void.hpp
src/boost/type_traits/is_enum.hpp
src/boost/type_traits/add_lvalue_reference.hpp
src/boost/type_traits/is_member_function_pointer.hpp
src/boost/type_traits/remove_bounds.hpp
src/boost/type_traits/is_union.hpp
src/boost/type_traits/is_rvalue_reference.hpp
src/boost/type_traits/make_unsigned.hpp
src/boost/type_traits/add_reference.hpp
src/boost/type_traits/config.hpp
src/boost/type_traits/ice.hpp
src/boost/type_traits/is_const.hpp
src/boost/type_traits/is_abstract.hpp
src/boost/type_traits/is_volatile.hpp
src/boost/type_traits/is_float.hpp
src/boost/type_traits/is_lvalue_reference.hpp
src/boost/type_traits/is_reference.hpp
src/boost/type_traits/is_same.hpp
src/boost/type_traits/remove_cv.hpp
src/boost/type_traits/intrinsics.hpp
src/boost/type_traits/is_arithmetic.hpp
src/boost/type_traits/is_function.hpp
src/boost/type_traits/add_rvalue_reference.hpp
src/boost/type_traits/is_unsigned.hpp
src/boost/type_traits/is_scalar.hpp
src/boost/type_traits/is_signed.hpp
src/boost/type_traits/integral_constant.hpp
src/boost/type_traits/add_const.hpp
src/boost/type_traits/is_convertible.hpp
src/boost/type_traits/add_volatile.hpp
src/boost/type_traits/is_integral.hpp
src/boost/type_traits/msvc/remove_cv.hpp
src/boost/type_traits/msvc/remove_reference.hpp
src/boost/type_traits/msvc/typeof.hpp
src/boost/type_traits/msvc/remove_bounds.hpp
src/boost/type_traits/detail/yes_no_type.hpp
src/boost/type_traits/detail/bool_trait_undef.hpp
src/boost/type_traits/detail/is_mem_fun_pointer_tester.hpp
src/boost/type_traits/detail/is_function_ptr_helper.hpp
src/boost/type_traits/detail/ice_eq.hpp
src/boost/type_traits/detail/ice_or.hpp
src/boost/type_traits/detail/ice_and.hpp
src/boost/type_traits/detail/wrap.hpp
src/boost/type_traits/detail/type_trait_def.hpp
src/boost/type_traits/detail/type_trait_undef.hpp
src/boost/type_traits/detail/false_result.hpp
src/boost/type_traits/detail/cv_traits_impl.hpp
src/boost/type_traits/detail/ice_not.hpp
src/boost/type_traits/detail/is_mem_fun_pointer_impl.hpp
src/boost/type_traits/detail/bool_trait_def.hpp
src/boost/type_traits/detail/template_arity_spec.hpp
src/boost/type_traits/detail/is_function_ptr_tester.hpp
src/boost/integer/integer_mask.hpp
src/boost/integer/static_log2.hpp
src/boost/detail/endian.hpp
src/boost/detail/limits.hpp
src/boost/detail/workaround.hpp
src/boost/preprocessor/iterate.hpp
src/boost/preprocessor/comma_if.hpp
src/boost/preprocessor/identity.hpp
src/boost/preprocessor/inc.hpp
src/boost/preprocessor/cat.hpp
src/boost/preprocessor/enum_params.hpp
src/boost/preprocessor/repeat.hpp
src/boost/preprocessor/empty.hpp
src/boost/preprocessor/arithmetic/dec.hpp
src/boost/preprocessor/arithmetic/sub.hpp
src/boost/preprocessor/arithmetic/inc.hpp
src/boost/preprocessor/arithmetic/add.hpp
src/boost/preprocessor/detail/check.hpp
src/boost/preprocessor/detail/is_binary.hpp
src/boost/preprocessor/detail/auto_rec.hpp
src/boost/preprocessor/detail/dmc/auto_rec.hpp
src/boost/preprocessor/logical/and.hpp
src/boost/preprocessor/logical/compl.hpp
src/boost/preprocessor/logical/bool.hpp
src/boost/preprocessor/logical/bitand.hpp
src/boost/preprocessor/control/while.hpp
src/boost/preprocessor/control/if.hpp
src/boost/preprocessor/control/iif.hpp
src/boost/preprocessor/control/expr_iif.hpp
src/boost/preprocessor/control/detail/while.hpp
src/boost/preprocessor/control/detail/dmc/while.hpp
src/boost/preprocessor/control/detail/edg/while.hpp
src/boost/preprocessor/control/detail/msvc/while.hpp
src/boost/preprocessor/iteration/iterate.hpp
src/boost/preprocessor/iteration/local.hpp
src/boost/preprocessor/iteration/self.hpp
src/boost/preprocessor/iteration/detail/self.hpp
src/boost/preprocessor/iteration/detail/finish.hpp
src/boost/preprocessor/iteration/detail/start.hpp
src/boost/preprocessor/iteration/detail/local.hpp
src/boost/preprocessor/iteration/detail/rlocal.hpp
src/boost/preprocessor/iteration/detail/bounds/lower2.hpp
src/boost/preprocessor/iteration/detail/bounds/lower5.hpp
src/boost/preprocessor/iteration/detail/bounds/upper5.hpp
src/boost/preprocessor/iteration/detail/bounds/upper2.hpp
src/boost/preprocessor/iteration/detail/bounds/lower4.hpp
src/boost/preprocessor/iteration/detail/bounds/lower3.hpp
src/boost/preprocessor/iteration/detail/bounds/upper3.hpp
src/boost/preprocessor/iteration/detail/bounds/upper4.hpp
src/boost/preprocessor/iteration/detail/bounds/upper1.hpp
src/boost/preprocessor/iteration/detail/bounds/lower1.hpp
src/boost/preprocessor/iteration/detail/iter/reverse5.hpp
src/boost/preprocessor/iteration/detail/iter/reverse2.hpp
src/boost/preprocessor/iteration/detail/iter/forward5.hpp
src/boost/preprocessor/iteration/detail/iter/forward2.hpp
src/boost/preprocessor/iteration/detail/iter/reverse3.hpp
src/boost/preprocessor/iteration/detail/iter/reverse4.hpp
src/boost/preprocessor/iteration/detail/iter/forward3.hpp
src/boost/preprocessor/iteration/detail/iter/forward4.hpp
src/boost/preprocessor/iteration/detail/iter/forward1.hpp
src/boost/preprocessor/iteration/detail/iter/reverse1.hpp
src/boost/preprocessor/variadic/elem.hpp
src/boost/preprocessor/variadic/size.hpp
src/boost/preprocessor/slot/slot.hpp
src/boost/preprocessor/slot/detail/slot4.hpp
src/boost/preprocessor/slot/detail/slot3.hpp
src/boost/preprocessor/slot/detail/shared.hpp
src/boost/preprocessor/slot/detail/slot2.hpp
src/boost/preprocessor/slot/detail/slot5.hpp
src/boost/preprocessor/slot/detail/counter.hpp
src/boost/preprocessor/slot/detail/def.hpp
src/boost/preprocessor/slot/detail/slot1.hpp
src/boost/preprocessor/debug/error.hpp
src/boost/preprocessor/repetition/for.hpp
src/boost/preprocessor/repetition/enum_params.hpp
src/boost/preprocessor/repetition/repeat.hpp
src/boost/preprocessor/repetition/detail/for.hpp
src/boost/preprocessor/repetition/detail/msvc/for.hpp
src/boost/preprocessor/repetition/detail/dmc/for.hpp
src/boost/preprocessor/repetition/detail/edg/for.hpp
src/boost/preprocessor/list/reverse.hpp
src/boost/preprocessor/list/for_each_i.hpp
src/boost/preprocessor/list/fold_right.hpp
src/boost/preprocessor/list/adt.hpp
src/boost/preprocessor/list/fold_left.hpp
src/boost/preprocessor/list/detail/fold_right.hpp
src/boost/preprocessor/list/detail/fold_left.hpp
src/boost/preprocessor/list/detail/dmc/fold_left.hpp
src/boost/preprocessor/list/detail/edg/fold_left.hpp
src/boost/preprocessor/list/detail/edg/fold_right.hpp
src/boost/preprocessor/tuple/elem.hpp
src/boost/preprocessor/tuple/eat.hpp
src/boost/preprocessor/tuple/rem.hpp
src/boost/preprocessor/tuple/to_list.hpp
src/boost/preprocessor/config/config.hpp
src/boost/preprocessor/punctuation/comma.hpp
src/boost/preprocessor/punctuation/comma_if.hpp
src/boost/preprocessor/facilities/overload.hpp
src/boost/preprocessor/facilities/identity.hpp
src/boost/preprocessor/facilities/empty.hpp
src/boost/preprocessor/array/size.hpp
src/boost/preprocessor/array/data.hpp
src/boost/preprocessor/array/elem.hpp
BitSeq documentation built on Nov. 17, 2017, 12:50 p.m.