remove_chimeras: Removes chimeric reads from amplicon sequencing data.

In Gibbons-Lab/mbtools: Provides helper functions for microbiome preprocessing and analysis

Removes chimeric reads from amplicon sequencing data.

Description

It is recommended to run this step after preprocessing which will be a bit more efficient.

Usage

remove_chimeras(object, ...)

Arguments

object	An experiment data table as returned by find_read_files or a worflow object.
...	A configuration as returned by config_chimera.

Value

A list containing the workflow results:

passed_reads

How many reads were kept in each step. Rows are samples and columns are workflow steps.

files

Preprocessed sequencing files list.

Gibbons-Lab/mbtools documentation built on Jan. 28, 2024, 11:08 a.m.