HALC: High throughput algorithm for long read error correction.

ABSTRACT:

Background

The third generation PacBio SMRT long reads can effectively address the read length issue of the second generation sequencing technology, but contain approximately 15% sequencing errors. Several error correction algorithms have been designed to efficiently reduce the error rate to 1%, but they discard large amounts of uncorrected bases and thus lead to low throughput. This loss of bases could limit the completeness of downstream assemblies and the accuracy of analysis.

Results

Here, we introduce HALC, a high throughput algorithm for long read error correction. HALC aligns the long reads to short read contigs from the same species with a relatively low identity requirement so that a long read region can be aligned to at least one contig region, including its true g

SUBMITTER: Bao E 

PROVIDER: S-EPMC5382505 | biostudies-literature | 2017 Apr

REPOSITORIES: biostudies-literature