Files in michbur/tidysq
Tidy Processing and Analysis of Biological Sequences

.Rbuildignore

.github/.gitignore

.github/ISSUE_TEMPLATE/bug_report.md .github/ISSUE_TEMPLATE/feature_request.md

.github/workflows/check-bioc.yml

.gitignore

DESCRIPTION

NAMESPACE

NEWS.md R/RcppExports.R R/alphabet.R R/bite.R R/catch-routine-registration.R R/collapse.R R/complement.R R/doc-sq-class.R R/doc-tidysq.R R/export_sq.R R/find_invalid_letters.R R/find_motifs.R R/has.R R/import_sq.R R/is_empty_sq.R R/paste.R R/random_sq.R R/read_fasta.R R/remove_ambiguous.R R/remove_na.R R/reverse.R R/sq.R R/sqapply.R R/substitute_letters.R

R/sysdata.rda

R/translate.R R/typify.R R/util-checkmate-functions.R R/util-conditions.R R/util-format.R R/util-methods.R R/util-options.R R/util-pack.R R/util-print.R R/util-type.R R/util-unpack.R R/util-vctrs-cast.R R/util-vctrs-names.R R/util-vctrs-prototypes.R R/write_fasta.R R/zzz.R README.Rmd README.md

_pkgdown.yml

codecov.yml

cran-comments.md

docs/404.html

docs/apple-touch-icon-120x120.png

docs/apple-touch-icon-152x152.png

docs/apple-touch-icon-180x180.png

docs/apple-touch-icon-60x60.png

docs/apple-touch-icon-76x76.png

docs/apple-touch-icon.png

docs/articles/advanced-alphabet.html

docs/articles/advanced-alphabet_files/header-attrs-2.9/header-attrs.js

docs/articles/index.html

docs/articles/quick-start.html

docs/articles/quick-start_files/header-attrs-2.9/header-attrs.js

docs/authors.html

docs/bootstrap-toc.css

docs/bootstrap-toc.js

docs/docsearch.css

docs/docsearch.js

docs/favicon-16x16.png

docs/favicon-32x32.png

docs/favicon.ico

docs/index.html

docs/link.svg

docs/logo.png

docs/news/index.html

docs/pkgdown.css

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/AAindex.html

docs/reference/BLOSUM50.html

docs/reference/BLOSUM50_enc.html

docs/reference/BLOSUM50_pca.html

docs/reference/BLOSUM62.html

docs/reference/BLOSUM62_enc.html

docs/reference/BLOSUM62_pca.html

docs/reference/Rplot001.png

docs/reference/alphabet.html

docs/reference/aminoacids_df.html

docs/reference/as.character.sq.html

docs/reference/as.matrix.sq.html

docs/reference/as.sq.html

docs/reference/bg_freqs.html

docs/reference/bite.html

docs/reference/c.sq.html

docs/reference/clean.html

docs/reference/collapse.html

docs/reference/complement.html

docs/reference/construct_sq.html

docs/reference/count_kmers.html

docs/reference/encode.html

docs/reference/encsq_to_list.html

docs/reference/equals-.sq.html

docs/reference/export_sq.html

docs/reference/extract_kmers.html

docs/reference/fast-mode.html

docs/reference/figures/lifecycle-archived.svg

docs/reference/figures/lifecycle-defunct.svg

docs/reference/figures/lifecycle-deprecated.svg

docs/reference/figures/lifecycle-experimental.svg

docs/reference/figures/lifecycle-maturing.svg

docs/reference/figures/lifecycle-questioning.svg

docs/reference/figures/lifecycle-soft-deprecated.svg

docs/reference/figures/lifecycle-stable.svg

docs/reference/figures/lifecycle-superseded.svg

docs/reference/figures/logo.png

docs/reference/find_invalid_letters.html

docs/reference/find_motifs.html

docs/reference/get_invalid_letters.html

docs/reference/get_sq_alphabet.html

docs/reference/get_sq_lengths.html

docs/reference/get_sq_type.html

docs/reference/get_standard_alphabet.html

docs/reference/get_tidysq_options.html

docs/reference/grapes-has-grapes.html

docs/reference/import_sq.html

docs/reference/index.html

docs/reference/is.sq.html

docs/reference/is_empty_sq.html

docs/reference/is_null_sq.html

docs/reference/nucleotides_df.html

docs/reference/paste.html

docs/reference/print.sq.html

docs/reference/random_sq.html

docs/reference/read_fasta.html

docs/reference/remove_ambiguous.html

docs/reference/remove_na.html

docs/reference/reverse.html

docs/reference/sq-class.html

docs/reference/sq.html

docs/reference/sq_type.html

docs/reference/sqapply.html

docs/reference/sqconcatenate.html

docs/reference/sqextract.html

docs/reference/sqprint.html

docs/reference/substitute_letters.html

docs/reference/tidysq-options.html

docs/reference/tidysq-package.html

docs/reference/translate.html

docs/reference/typify.html

docs/reference/write_fasta.html

inst/WORDLIST

inst/examples/example_aa.fasta

inst/include/tidysq.h

inst/include/tidysq/Alphabet.h

inst/include/tidysq/ProtoSequence.h

inst/include/tidysq/ProtoSequenceInputInterpreter.h

inst/include/tidysq/ProtoSq.h

inst/include/tidysq/Proxy.h

inst/include/tidysq/Rcpp-export.h

inst/include/tidysq/Rcpp-import.h

inst/include/tidysq/Sequence.h

inst/include/tidysq/Sq.h

inst/include/tidysq/collapse.h

inst/include/tidysq/constants/WarningLevel.h

inst/include/tidysq/constants/ambiguous_maps.h

inst/include/tidysq/constants/complement_tables.h

inst/include/tidysq/constants/io.h

inst/include/tidysq/constants/standard_letters.h

inst/include/tidysq/constants/translate_tables.h

inst/include/tidysq/find_motifs.h

inst/include/tidysq/internal/LetterTree.h

inst/include/tidysq/internal/Motif.h

inst/include/tidysq/internal/MotifFrame.h

inst/include/tidysq/internal/obtain_alphabet.h

inst/include/tidysq/internal/pack.h

inst/include/tidysq/internal/unpack_common.h

inst/include/tidysq/internal/unpack_multichar.h

inst/include/tidysq/io/read_fasta.h

inst/include/tidysq/io/write_fasta.h

inst/include/tidysq/ops/Operation.h

inst/include/tidysq/ops/apply_R_function.h

inst/include/tidysq/ops/bite.h

inst/include/tidysq/ops/complement.h

inst/include/tidysq/ops/find_invalid_letters.h

inst/include/tidysq/ops/has.h

inst/include/tidysq/ops/pack.h

inst/include/tidysq/ops/random_sq.h

inst/include/tidysq/ops/remove_NA.h

inst/include/tidysq/ops/remove_ambiguous.h

inst/include/tidysq/ops/remove_on_condition.h

inst/include/tidysq/ops/reverse.h

inst/include/tidysq/ops/skip.h

inst/include/tidysq/ops/substitute_letters.h

inst/include/tidysq/ops/translate.h

inst/include/tidysq/ops/typify.h

inst/include/tidysq/ops/unpack.h

inst/include/tidysq/paste.h

inst/include/tidysq/sq-types.h

inst/include/tidysq/sqapply.h

inst/include/tidysq/tidysq-typedefs.h

inst/include/tidysq/util/ResultWrapper.h

inst/include/tidysq/util/calculate_length.h

inst/include/tidysq/util/find_common_size.h

inst/include/tidysq/util/handle_warning_message.h

inst/include/tidysq/util/match_letter.h

inst/include/tidysq/util/obtain_alphabet.h

inst/include/tidysq/util/random.h

inst/include/tidysq/util/transform-common.h

man/alphabet.Rd man/as.character.sq.Rd man/as.matrix.sq.Rd man/as.sq.Rd man/bite.Rd man/collapse.Rd man/complement.Rd man/equals-.sq.Rd man/export_sq.Rd

man/figures/lifecycle-archived.svg

man/figures/lifecycle-defunct.svg

man/figures/lifecycle-deprecated.svg

man/figures/lifecycle-experimental.svg

man/figures/lifecycle-maturing.svg

man/figures/lifecycle-questioning.svg

man/figures/lifecycle-soft-deprecated.svg

man/figures/lifecycle-stable.svg

man/figures/lifecycle-superseded.svg

man/figures/logo.png

pkgdown/favicon/apple-touch-icon-120x120.png

pkgdown/favicon/apple-touch-icon-152x152.png

pkgdown/favicon/apple-touch-icon-180x180.png

pkgdown/favicon/apple-touch-icon-60x60.png

pkgdown/favicon/apple-touch-icon-76x76.png

pkgdown/favicon/apple-touch-icon.png

pkgdown/favicon/favicon-16x16.png

pkgdown/favicon/favicon-32x32.png

pkgdown/favicon/favicon.ico

renv.lock

renv/.gitignore

renv/activate.R

renv/settings.dcf

src/Makevars

src/Makevars.win

src/RcppExports.cpp

src/apply_R_function.cpp

src/bite.cpp

src/collapse.cpp

src/complement.cpp

src/find_invalid_letters.cpp

src/find_motifs.cpp

src/get_standard_alphabet.cpp

src/guess_standard_alph.cpp

src/has.cpp

src/obtain_alphabet.cpp

src/pack.cpp

src/paste.cpp

src/random_sq.cpp

src/read_fasta.cpp

src/remove_NA.cpp

src/remove_ambiguous.cpp

src/reverse.cpp

src/sqapply.cpp

src/substitute_letters.cpp

src/test-pack.cpp

src/test-runner.cpp

src/translate.cpp

src/typify.cpp

src/unpack.cpp

src/write_fasta.cpp

vignettes/.gitignore

vignettes/advanced-alphabet.Rmd vignettes/quick-start.Rmd

michbur/tidysq documentation built on April 1, 2022, 5:18 p.m.

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michbur/tidysq
Tidy Processing and Analysis of Biological Sequences

Files in michbur/tidysq
Tidy Processing and Analysis of Biological Sequences

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michbur/tidysq Tidy Processing and Analysis of Biological Sequences

Files in michbur/tidysq Tidy Processing and Analysis of Biological Sequences

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michbur/tidysq
Tidy Processing and Analysis of Biological Sequences

Files in michbur/tidysq
Tidy Processing and Analysis of Biological Sequences