Create an bowtie2 index for a bisulfite converted genome
gpatterns.bissli2_build(reference, idx_base, bowtie2_options,
bowtie2_build_bin = "bowtie2-build",
bissli2_build_bin = .gpatterns.bissli2_build_bin)
Arguments
- reference
- a vector of FASTA file names holding the reference genome.
- idx_base
- The basename of the index files that will be created.
- bowtie2_options
- Any unknown options are passed transparently to bowtie2-build.
Note that bissli2-build can only handle FASTA files as input. Therefore the '-f' option is always passed to bowtie2-build
- bowtie2_build_bin
- The path of the bowtie2-build executable. [bowtie2-build]
- bissli2_build_bin
- binary of bissli2-build