CHAPAO: Likelihood and hierarchical reference-based representation of biomolecular sequences and applications to compressing multiple sequence alignments.

ABSTRACT:

Background

High-throughput experimental technologies are generating tremendous amounts of genomic data, offering valuable resources to answer important questions and extract biological insights. Storing this sheer amount of genomic data has become a major concern in bioinformatics. General purpose compression techniques (e.g. gzip, bzip2, 7-zip) are being widely used due to their pervasiveness and relatively good speed. However, they are not customized for genomic data and may fail to leverage special characteristics and redundancy of the biomolecular sequences.

Results

We present a new lossless compression method CHAPAO (COmpressing Alignments using Hierarchical and Probabilistic Approach), which is especially designed for multiple sequence alignments (MSAs) of biomolecular

SUBMITTER: Rahman MA 

PROVIDER: S-EPMC9015123 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature