Module fmlrc::read_correction

Contains the logic for performing the read correction

Structs

Correction	a basic struct for storing a correction to a sequence
CorrectionParameters	stores options for running the correction algorithms
CorrectionResults	a struct for storing the modified string
LongReadFA	a struct for storing generic read

Functions

assemble_from_kmer	Given an initial k-mer, this will extend outwards from that k-mer up to the max branch length.
bridge_kmers	Traverses from one kmer to another using the BWT for querying counts
correction_job	This will run a correction "job" on a single long read using a shared BWT resource.
correction_pass	This is the core correction function. It takes a BWT, a sequence, parameters, and a k-mer size and performs the following high level steps: calculate expected k-mer counts, identify gaps, bridge/extend from solid k-mers, and finally build the corrected sequence.