Files in gschofl/biofiles
An Interface for GenBank/GenPept Flat Files
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/RcppExports.R
R/all-generics.R
R/biofiles-package.R
R/filter.R
R/flanking.R
R/gbFeature-class.R
R/gbFeatureTable-class.R
R/gbHeader-class.R
R/gbLocation-class.R
R/gbRecord-class.R
R/gbRecordList-class.R
R/genome-record-from-ncbi.R
R/make-ranges.R
R/misc-functions.R
R/parser-embl.R
R/parser-gbk.R
R/parser-general.R
R/select.R
R/shift.R
R/utils.R
R/write-feature-table.R
R/write-genbank.R
R/zzz.R
README.Rmd
README.md
appveyor.yml
biofiles.Rproj
cran-comments.md
inst/examples/envirAsList.r
inst/examples/flatten.r
inst/extdata/NC_001224.rds
inst/extdata/S_cerevisiae_mito.gb
inst/extdata/S_cerevisiae_mito.rda
inst/extdata/gss.gb
inst/extdata/marine_metagenome.gb
inst/extdata/marine_metagenome.rda
man/accessors.Rd
man/as.gbLocation.Rd
man/biofiles.Rd
man/dbxref-methods.Rd
man/dot-filter.Rd
man/dot-select.Rd
man/embl_record.Rd
man/end.Rd
man/extract-methods.Rd
man/featureTable-methods.Rd
man/fuzzy.Rd
man/gbFeature-class.Rd
man/gbFeatureTable-class.Rd
man/gbHeader-class.Rd
man/gbLocation-class.Rd
man/gbLocus-class.Rd
man/gbRecord-class.Rd
man/gbRecord.Rd
man/gbRecordList-class.Rd
man/gbReference-class.Rd
man/gbReferenceList-class.Rd
man/gbk_record.Rd
man/geneID.Rd
man/genomeRecordFromNCBI.Rd
man/getContigSeq.Rd
man/getFeatures-methods.Rd
man/getHeader-methods.Rd
man/getSequence-methods.Rd
man/hasKey-methods.Rd
man/hasQualif-methods.Rd
man/has_command.Rd
man/index-methods.Rd
man/key-methods.Rd
man/length-methods.Rd
man/linebreak.Rd
man/location-methods.Rd
man/locusTag.Rd
man/manip-methods.Rd
man/note.Rd
man/pad.Rd
man/product.Rd
man/proteinID.Rd
man/qualif-methods.Rd
man/qualifList-methods.Rd
man/qualifTable-methods.Rd
man/ranges.Rd
man/revcomp-methods.Rd
man/saveRecord-methods.Rd
man/seqinfo-class.Rd
man/shift.Rd
man/span.Rd
man/start.Rd
man/strand.Rd
man/summary-methods.Rd
man/translation.Rd
man/uniqueQualifs.Rd
man/upstream.Rd
man/view-methods.Rd
man/write.FeatureTable-methods.Rd
man/write.GenBank-methods.Rd
src/Makevars
src/Makevars.win
src/RcppExports.cpp
src/biofiles.h
src/parse_feature_table.cpp
src/parse_gb_location.cpp
tests/test-all.R
tests/testthat/sequences/CDS.embl
tests/testthat/sequences/CDS.gbk
tests/testthat/sequences/header.embl
tests/testthat/sequences/header.gbk
tests/testthat/sequences/header_no_ref.gbk
tests/testthat/sequences/nuc.efetch.RData
tests/testthat/sequences/nuc.efetch.rda
tests/testthat/sequences/nucleotide.gbk
tests/testthat/sequences/nucleotide.rda
tests/testthat/sequences/prot.efetch.RData
tests/testthat/sequences/prot.efetch.rda
tests/testthat/sequences/protein.gp
tests/testthat/sequences/protein.rda
tests/testthat/sequences/ref1.gbk
tests/testthat/sequences/ref2.gbk
tests/testthat/sequences/sample.embl
tests/testthat/sequences/source.embl
tests/testthat/sequences/source.gbk
tests/testthat/test-01-gbLocation.R
tests/testthat/test-02-gbLocus.R
tests/testthat/test-03-gbHeader.R
tests/testthat/test-04-gbFeature.R
tests/testthat/test-05-gbFeatureTable.R
tests/testthat/test-06-gbRecord.R
tests/testthat/test-07-gbRecord.R
tests/testthat/test-08-gbRecord.R
tests/testthat/test-filter.R
tests/testthat/test-select.R
tests/testthat/test-utils.r
vignettes/IntroBiofiles.Rnw
