ALFA: annotation landscape for aligned reads.

ABSTRACT:

Background

The last 10 years have seen the rise of countless functional genomics studies based on Next-Generation Sequencing (NGS). In the vast majority of cases, whatever the species, whatever the experiment, the two first steps of data analysis consist of a quality control of the raw reads followed by a mapping of those reads to a reference genome/transcriptome. Subsequent steps then depend on the type of study that is being made. While some tools have been proposed for investigating data quality after the mapping step, there is no commonly adopted framework that would be easy to use and broadly applicable to any NGS data type.

Results

We present ALFA, a simple but universal tool that can be used after the mapping step on any kind of NGS experiment data for any organism wi

SUBMITTER: Bahin M 

PROVIDER: S-EPMC6440077 | biostudies-literature | 2019 Mar

REPOSITORIES: biostudies-literature