Librarian: A quality control tool to analyse sequencing library compositions.

ABSTRACT:

Background

Robust analysis of DNA sequencing data needs to include a set of quality control steps to ensure that technical bias is kept to a minimum. A metric easily obtained is the frequency of each of the nucleobases for each position across all sequencing reads. Here, we explore the differences in nucleobase compositions of various library types produced by standard experimental methodologies.  Methods: We obtained the compositions of nearly 3000 publicly available datasets and subjected them to Uniform Manifold Approximation and Projection (UMAP) dimensionality reduction for a two-dimensional representation of their composition characteristics.   Results: We find that most library types result in a specific composition profile. We use this to give an estimate of how strongly th

SUBMITTER: Vashishtha K 

PROVIDER: S-EPMC9579741 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature