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bioseq  

A Toolbox for Manipulating Biological Sequences
View on CRAN: Click here


Download and install bioseq package within the R console
Install from CRAN:
install.packages("bioseq")

Install from Github:
library("remotes")
install_github("cran/bioseq")

Install by package version:
library("remotes")
install_version("bioseq", "0.1.4")



Attach the package and use:
library("bioseq")
Maintained by
Francois Keck
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2020-07-27
Latest Update: 2022-09-06
Description:
Classes and functions to work with biological sequences (DNA, RNA and amino acid sequences). Implements S3 infrastructure to work with biological sequences as described in Keck (2020) . Provides a collection of functions to perform biological conversion among classes (transcription, translation) and basic operations on sequences (detection, selection and replacement based on positions or patterns). The package also provides functions to import and export sequences from and to other package formats.
How to cite:
Francois Keck (2020). bioseq: A Toolbox for Manipulating Biological Sequences. R package version 0.1.4, https://cran.r-project.org/web/packages/bioseq. Accessed 02 Feb. 2025.
Previous versions and publish date:
0.1.1 (2020-07-27 01:00), 0.1.2 (2020-11-26 03:40), 0.1.3 (2021-09-03 10:30)
Other packages that cited bioseq R package
View bioseq citation profile
Other R packages that bioseq depends, imports, suggests or enhances
Complete documentation for bioseq
Functions, R codes and Examples using the bioseq R package
Some associated functions: aa . aliview . alphabets . as-tibble-ape . as-tibble-bioseq . as_AAbin . as_AAbin.tbl_df . as_DNAbin . as_DNAbin.tbl_df . as_aa . as_dna . as_rna . as_seqinr_alignment . bioseq-package . dic_genetic_codes . dna . fragilaria . genetic-codes . internal-methods . is_aa . is_dna . is_rna . new_aa . new_dna . new_rna . pillar_shaft.bioseq_aa . pillar_shaft.bioseq_dna . pillar_shaft.bioseq_rna . read_fasta . rev_complement . rna . seaview . seq-replace . seq_cluster . seq_combine . seq_consensus . seq_count_pattern . seq_crop_pattern . seq_crop_position . seq_detect_pattern . seq_disambiguate_IUPAC . seq_extract_pattern . seq_extract_position . seq_nchar . seq_nseq . seq_remove_pattern . seq_remove_position . seq_replace_position . seq_rev_translate . seq_spellout . seq_split_kmer . seq_split_pattern . seq_stat_gc . seq_stat_prop . seq_translate . transcription . validate_seq . write_fasta . 
Some associated R codes: as_DNAbin.R . as_seqinr.R . as_tibble.R . bioseq-package.R . checks_validation.R . data.R . def_aa.R . def_dna.R . def_rna.R . dictionaries.R . genetic_codes.R . gui_wrappers.R . internals.R . print_format.R . read_write_fasta.R . seq_biological_operations.R . seq_fuzzy_operations.R . seq_misc_operations.R . seq_stat_operations.R . seq_string_operation.R . seq_summarize_operations.R . zzz.R .  Full bioseq package functions and examples
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