kmers

require(GCModeller);

#' The sequence k-mer tools
imports "kmers" from "seqtoolkit";

The sequence k-mer tools

This R# package module provides the toolkit for make the k-mer based sequence data analysis:

• kmers: generate the k-mer sequence fragments from a given sequence data in a sliding window manner;

• kmers_matrix: generate the k-mer count matrix of a given sequence collection;

• tfidf_vectorizer and onehot_vectorizer: make the sequence embedding via the bag-of-k-mers model, the TF-IDF weight or the one-hot encoding vector;

• cdhit_nr and cdhit_clusters: run the CD-HIT like sequence clustering for get the non-redundant sequence set or the cluster family table.