GSER (a Genome Size Estimator using R): a pipeline for quality assessment of sequenced genome libraries through genome size estimation.

ABSTRACT: The first step in any genome research after obtaining the read data is to perform a due quality control of the sequenced reads. In a de novo genome assembly project, the second step is to estimate two important features, the genome size and 'best k-mer', to start the assembly tests with different de novo assembly software and its parameters. However, the quality control of the sequenced genome libraries as a whole, instead of focusing on the reads only, is frequently overlooked and realized to be important only when the assembly tests did not render the expected results. We have developed GSER, a Genome Size Estimator using R, a pipeline to evaluate the relationship between k-mers and genome size, as a means for quality assessment of the sequenced genome librari

SUBMITTER: Valdebenito-Maturana B 

PROVIDER: S-EPMC8193462 | biostudies-literature | 2021 Jun

REPOSITORIES: biostudies-literature