SPAligner: alignment of long diverged molecular sequences to assembly graphs.

ABSTRACT:

Background

Graph-based representation of genome assemblies has been recently used in different contexts - from improved reconstruction of plasmid sequences and refined analysis of metagenomic data to read error correction and reference-free haplotype reconstruction. While many of these applications heavily utilize the alignment of long nucleotide sequences to assembly graphs, first general-purpose software tools for finding such alignments have been released only recently and their deficiencies and limitations are yet to be discovered. Moreover, existing tools can not perform alignment of amino acid sequences, which could prove useful in various contexts - in particular the analysis of metagenomic sequencing data.

Results

In this work we present a novel SPAligner (Saint-Pete

SUBMITTER: Dvorkina T 

PROVIDER: S-EPMC7379835 | biostudies-literature | 2020 Jul

REPOSITORIES: biostudies-literature