GeneticBitArrays.jl
BitArray representation of genetic sequences in Julia
MIT License
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GeneticBitArrays.jl
Description
Minimal representations of DNA and RNA genetic sequences using BitArrays in Julia.
Installation
The current release can be installed from the Julia REPL with:
pkg> add GeneticBitArrays
The development version (master branch) can be installed with:
pkg> add GeneticBitArrays#master
Use
Input using String, Vector{Char} with nucleotides indicated by their IUPAC code. You may also construct a sequence with a 4 x n BitArray - the same way sequences are represented internally with this package.
Example
julia> x = DNASeq("NVHMDRWABSYCKGT-")
16nt DNA sequence
NVHMDRWABSYCKGT-
julia> x.data
4×16 BitArray{2}:
1 1 1 1 1 1 1 1 0 0 0 0 0 0 0 0
1 1 1 1 0 0 0 0 1 1 1 1 0 0 0 0
1 1 0 0 1 1 0 0 1 1 0 0 1 1 0 0
1 0 1 0 1 0 1 0 1 0 1 0 1 0 1 0
Notes
- For a full featured package for biological sequences see BioSequences.jl.
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Top 33.74% on Juliahub.com
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