ASAP 2: a pipeline and web server to analyze marker gene amplicon sequencing data automatically and consistently.

ABSTRACT:

Background

Amplicon sequencing of marker genes such as 16S rDNA have been widely used to survey and characterize microbial community. However, the complex data analyses have required many interfering manual steps often leading to inconsistencies in results.

Results

Here, we have developed a pipeline, amplicon sequence analysis pipeline 2 (ASAP 2), to automate and glide through the processes without the usual manual inspections and user's interference, for instance, in the detection of barcode orientation, selection of high-quality region of reads, and determination of resampling depth and many more. The pipeline integrates all the analytical processes such as importing data, demultiplexing, summarizing read profiles, trimming quality, denoising, removing chimeric sequences a

SUBMITTER: Tian R 

PROVIDER: S-EPMC8740450 | biostudies-literature | 2022 Jan

REPOSITORIES: biostudies-literature