Result of parsing one FASTA/FASTQ file into packed canonical k-mers. More...

Public Attributes
std::vector< uint64_t >	kmers
	Packed canonical k-mers from all records, treated as one combined genome.

uint64_t	bases = 0
	Total valid sequence bases read.

uint64_t	valid_kmers = 0
	Number of k-mers emitted (one per rolling window of `k` valid bases).

uint64_t	invalid_windows = 0
	Number of partial windows broken by an invalid base before reaching length `k`.

Detailed Description

Result of parsing one FASTA/FASTQ file into packed canonical k-mers.

Definition at line 21 of file fasta_parser.hpp.

Member Data Documentation

uint64_t cuddl::detail::fasta_parse_result::bases = 0

Total valid sequence bases read.

Definition at line 25 of file fasta_parser.hpp.

uint64_t cuddl::detail::fasta_parse_result::invalid_windows = 0

Number of partial windows broken by an invalid base before reaching length k.

Definition at line 29 of file fasta_parser.hpp.

std::vector<uint64_t> cuddl::detail::fasta_parse_result::kmers

Packed canonical k-mers from all records, treated as one combined genome.

Definition at line 23 of file fasta_parser.hpp.

uint64_t cuddl::detail::fasta_parse_result::valid_kmers = 0

Number of k-mers emitted (one per rolling window of k valid bases).

Definition at line 27 of file fasta_parser.hpp.

The documentation for this struct was generated from the following file: