count_kmers: Count kmers
In lindberg-m/contextendR: Analyse genomic data with regard to sequence contexts
Description
Count the number of sequences that contain kmers. For example, the set of
sequences c("AAAAAA", "AGCAGC", "TTAAGG") will detect
"AAA" only once, in the first sequence. Even though the kmer "AAA" occurs
more than once in the first sequence - it's only in one sequence (the two
other sequences does not contain any "AAA" kmer) - so the function will
return a count of 1.
Usage
1
count_kmers(sequences, kmer_size)
Arguments
sequences
A vector of Strings (DNA sequences) of length 'n'
kmer_size
Integer. Size of kmers to use for analysis.
lindberg-m/contextendR documentation built on Jan. 8, 2022, 3:16 a.m.
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Description
Count the number of sequences that contain kmers. For example, the set of
sequences c("AAAAAA", "AGCAGC", "TTAAGG") will detect
"AAA" only once, in the first sequence. Even though the kmer "AAA" occurs
more than once in the first sequence - it's only in one sequence (the two
other sequences does not contain any "AAA" kmer) - so the function will
return a count of 1.
Usage
1 | count_kmers(sequences, kmer_size)
|
Arguments
sequences |
A vector of Strings (DNA sequences) of length 'n' |
kmer_size |
Integer. Size of kmers to use for analysis. |
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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