NW-like extension
Global alignment
Generate the cs tag (new in 2.12)
Destroy/deallocate an index
Destroy/deallocate an hash table index
Destroy/deallocate target sequences
Append an index (or one part of a full index) to file
Store hash table from minimap2 index into a file
@param f_name File name for output file
@param mi minimap2 index
Check whether the file contains a minimap2 index
Load a part of an index
Destroy/deallocate an index reader
Initialize an index reader
Read/build an index
Print index statistics to stderr
Create an index from strings in memory
Align a query sequence against an index
Align a fasta/fastq file and print alignments to stdout
Update mm_mapopt_t::mid_occ via mm_mapopt_t::mid_occ_frac
Set default or preset parameters
Destroy/deallocate a thread-local buffer for mapping
Initialize a thread-local buffer for mapping