API for michbur/tidysq
Tidy processing and analysis of biological sequences

Global functions
%has% Man page
.apply_sq Source code
.check_all_elem Source code
.check_all_up_alph_proper Source code
.check_alph_is_subset Source code
.check_alph_length Source code
.check_alph_matches_type Source code
.check_character Source code
.check_class_character Source code
.check_class_logical Source code
.check_class_numeric Source code
.check_digest_pattern Source code
.check_dists_prop_len Source code
.check_enc_names_in_alph Source code
.check_eq_lens Source code
.check_export_format Source code
.check_has_no_na Source code
.check_integer Source code
.check_is_clean Source code
.check_is_installed Source code
.check_is_named Source code
.check_is_single_elem Source code
.check_is_unique Source code
.check_isnt_missing Source code
.check_isnt_null Source code
.check_isnt_zero_len Source code
.check_list_dists Source code
.check_logical Source code
.check_motifs_proper_alph Source code
.check_nchar Source code
.check_numeric Source code
.check_paste_or_na Source code
.check_real_alph_clean Source code
.check_simple Source code
.check_sq_has_type Source code
.check_type Source code
.check_type_or_nonst_alph Source code
.construct_amisq Source code
.construct_dnasq Source code
.construct_rnasq Source code
.construct_sq_ptype Source code
.construct_sq_s Source code
.construct_untsq Source code
.cut_sq Source code
.find_motifs_sq Source code
.find_motifs_validate Source code
.format_sq Source code
.get_alph_size Source code
.get_color_opt Source code
.get_na_letter Source code
.get_na_val Source code
.get_p_seqs Source code
.get_print_length Source code
.get_readable_file Source code
.get_real_alph Source code
.get_sq_subclass Source code
.get_sq_type Source code
.get_standard_alph Source code
.guess_ami_is_clean Source code
.guess_dna_is_clean Source code
.guess_rna_is_clean Source code
.guess_sq_type_subtype Source code
.guess_type_subtype_by_alph Source code
.handle_opt_txt Source code
.is_cleaned Source code
.is_fast_mode Source code
.merge_ind Source code
.nc_construct_sq Source code
.nc_pack_to_sq Source code
.nc_read_fasta Source code
.nonst_construct_sq Source code
.nonst_read_fasta Source code
.onLoad Source code
.pack_to_sq Source code
.pillar_shaft_sq Source code
.regexify_pattern Source code
.replace_ami_motif Source code
.replace_dna_motif Source code
.replace_rna_motif Source code
.return_sqibble Source code
.set_original_length Source code
.skip_characters Source code
.standard_checks Source code
.unpack_from_sq Source code
.validate_amisq Source code
.validate_atpsq Source code
.validate_dnasq Source code
.validate_encsq Source code
.validate_rnasq Source code
.validate_sq Source code
.validate_untsq Source code
==.sq Man page
AAindex Man page
AAindex_norm Man page
BLOSUM50 Man page
BLOSUM50_enc Man page
BLOSUM50_pca Man page
BLOSUM62 Man page
BLOSUM62_enc Man page
BLOSUM62_pca Man page
C_get_alph_size Source code
C_get_na_val Source code
C_get_out_len Source code
C_get_real_alph Source code
C_pack_chars Source code
C_pack_ints Source code
C_pack_raws Source code
C_pack_string Source code
C_unpack_chars Source code
C_unpack_ints Source code
C_unpack_raws Source code
C_unpack_sq_parallel Source code
C_unpack_string Source code
`%has%.amisq` Source code
`%has%.default` Source code
`%has%.dnasq` Source code
`%has%.rnasq` Source code
`%has%.sq` Source code
`%has%` Source code
`==.sq` Source code
`[.sq_alphabet` Source code
`alphabet<-` Source code
`na_letter<-` Source code
alphabet Source code
aminoacids_df Man page
as.character.sq Man page Source code
as.matrix.encsq Source code
as.matrix.sq Man page Source code
as.sq Man page Source code
as.sq.character Source code
as.sq.default Source code
bg_freqs Man page
bite Man page Source code
clean Man page Source code
complement Man page Source code
complement.default Source code
complement.dnasq Source code
complement.rnasq Source code
complement_dna Man page Source code
complement_dna.default Source code
complement_dna.dnasq Source code
complement_rna Man page Source code
complement_rna.default Source code
complement_rna.rnasq Source code
construct_sq Man page Source code
construct_sq_ami Man page Source code
construct_sq_dna Man page Source code
construct_sq_rna Man page Source code
digest Man page Source code
encode Man page Source code
encsq_to_list Man page Source code
export_sq Man page Source code
export_sq.amisq Source code
export_sq.default Source code
export_sq.dnasq Source code
export_sq.rnasq Source code
fast-mode Man page
find_alph Source code
find_motifs Man page Source code
find_motifs.amisq Source code
find_motifs.default Source code
find_motifs.dnasq Source code
find_motifs.rnasq Source code
find_motifs.sq Source code
format.encsq Source code
format.pillar_shaft_sq Source code
format.sq Source code
get_invalid_letters Man page Source code
get_sq_alphabet Man page Source code
get_sq_lengths Man page Source code
get_sq_type Man page Source code
get_tidysq_options Man page Source code
import_sq Man page Source code
import_sq.AAString Source code
import_sq.AAStringSet Source code
import_sq.AAbin Source code
import_sq.BString Source code
import_sq.BStringSet Source code
import_sq.DNAString Source code
import_sq.DNAStringSet Source code
import_sq.DNAbin Source code
import_sq.RNAString Source code
import_sq.RNAStringSet Source code
import_sq.SeqFastaAA Source code
import_sq.SeqFastadna Source code
import_sq.XStringSetList Source code
import_sq.alignment Source code
import_sq.default Source code
import_sq.list Source code
is.amisq Man page Source code
is.atpsq Man page Source code
is.dnasq Man page Source code
is.encsq Man page Source code
is.rnasq Man page Source code
is.sq Man page Source code
is.untsq Man page Source code
is_null_sq Man page Source code
na_letter Source code
nc_pack_ami Source code
nc_pack_cami Source code
nc_pack_cdna Source code
nc_pack_crna Source code
nc_pack_dna Source code
nc_pack_rna Source code
nc_read_fasta_file Source code
nucleotides_df Man page
obj_print_data.sq Source code
obj_print_footer.sq Source code
obj_print_header.sq Source code
pillar_shaft.encsq Source code
pillar_shaft.sq Source code
random_sq Man page Source code
read_fasta Man page Source code
read_fasta_ami Man page Source code
read_fasta_dna Man page Source code
read_fasta_file Source code
read_fasta_rna Man page Source code
remove_na Man page Source code
reverse Man page Source code
sq Man page
sq-concatenate Man page
sq-extract Man page
sq-print Man page
sq_alphabet Source code
sq_alphabet_ptype Source code
sqapply Man page Source code
sqconcatenate Man page
sqextract Man page
sqprint Man page
substitute_letters Man page Source code
tidysq Man page
tidysq-options Man page
tidysq-package Man page
typify Man page Source code
unpack_raws_to_std_vector Source code
vec_cast.amisq.amisq Source code
vec_cast.amisq.character Source code
vec_cast.amisq.untsq Source code
vec_cast.atpsq.atpsq Source code
vec_cast.atpsq.character Source code
vec_cast.character.amisq Source code
vec_cast.character.atpsq Source code
vec_cast.character.dnasq Source code
vec_cast.character.rnasq Source code
vec_cast.character.sq_alphabet Source code
vec_cast.character.untsq Source code
vec_cast.dnasq.character Source code
vec_cast.dnasq.dnasq Source code
vec_cast.dnasq.untsq Source code
vec_cast.rnasq.character Source code
vec_cast.rnasq.rnasq Source code
vec_cast.rnasq.untsq Source code
vec_cast.sq_alphabet.character Source code
vec_cast.sq_alphabet.sq_alphabet Source code
vec_cast.untsq.amisq Source code
vec_cast.untsq.character Source code
vec_cast.untsq.dnasq Source code
vec_cast.untsq.rnasq Source code
vec_cast.untsq.untsq Source code
vec_ptype2.amisq.amisq Source code
vec_ptype2.amisq.character Source code
vec_ptype2.amisq.untsq Source code
vec_ptype2.atpsq.atpsq Source code
vec_ptype2.atpsq.character Source code
vec_ptype2.character.amisq Source code
vec_ptype2.character.atpsq Source code
vec_ptype2.character.dnasq Source code
vec_ptype2.character.rnasq Source code
vec_ptype2.character.sq_alphabet Source code
vec_ptype2.character.untsq Source code
vec_ptype2.dnasq.character Source code
vec_ptype2.dnasq.dnasq Source code
vec_ptype2.dnasq.untsq Source code
vec_ptype2.rnasq.character Source code
vec_ptype2.rnasq.rnasq Source code
vec_ptype2.rnasq.untsq Source code
vec_ptype2.sq_alphabet.character Source code
vec_ptype2.untsq.amisq Source code
vec_ptype2.untsq.character Source code
vec_ptype2.untsq.dnasq Source code
vec_ptype2.untsq.rnasq Source code
vec_ptype2.untsq.untsq Source code
vec_ptype_abbr.amisq Source code
vec_ptype_abbr.atpsq Source code
vec_ptype_abbr.clnsq Source code
vec_ptype_abbr.dnasq Source code
vec_ptype_abbr.encsq Source code
vec_ptype_abbr.rnasq Source code
vec_ptype_abbr.sq Source code
vec_ptype_abbr.sq_alphabet Source code
vec_ptype_abbr.untsq Source code
vec_ptype_full.amisq Source code
vec_ptype_full.atpsq Source code
vec_ptype_full.clnsq Source code
vec_ptype_full.dnasq Source code
vec_ptype_full.encsq Source code
vec_ptype_full.rnasq Source code
vec_ptype_full.sq Source code
vec_ptype_full.sq_alphabet Source code
vec_ptype_full.untsq Source code
write_fasta Man page Source code
michbur/tidysq documentation built on Sept. 17, 2020, 5:16 a.m.