============================== Mappy: Minimap2 Python Binding

Mappy provides a convenient interface to minimap2 <https://github.com/lh3/minimap2>, a fast and accurate C program to align genomic and transcribe nucleotide sequences.

Mappy implements two classes and two global functions.

Class mappy.Aligner: performs alignment with the following methods and property:

• mappy.Aligner(fn_idx_in=None, preset=None, ...)
• mappy.Aligner.map(seq, seq2=None, cs=False, MD=False)
• mappy.Aligner.seq(name, start=0, end=0x7fffffff)
• mappy.Aligner.seq_names

Class mappy.Alignment: describes a single alignment

mappy.fastx_read(fn, read_comment=False): generator for a FASTA/FASTQ file

mappy.revcomp(seq): return the reverse complement of DNA string