Factorial estimating assembly base errors using k-mer abundance difference (KAD) between short reads and genome assembled sequences.

ABSTRACT: Genome sequences provide genomic maps with a single-base resolution for exploring genetic contents. Sequencing technologies, particularly long reads, have revolutionized genome assemblies for producing highly continuous genome sequences. However, current long-read sequencing technologies generate inaccurate reads that contain many errors. Some errors are retained in assembled sequences, which are typically not completely corrected by using either long reads or more accurate short reads. The issue commonly exists, but few tools are dedicated for computing error rates or determining error locations. In this study, we developed a novel approach, referred to as k-mer abundance difference (KAD), to compare the inferred copy number of each k-mer indicated by short reads and the obs

SUBMITTER: He C 

PROVIDER: S-EPMC7671381 | biostudies-literature | 2020 Sep

REPOSITORIES: biostudies-literature