combineReadTrackingTables16S: Combine 16S Read-Tracking Tables

In claraqin/neonMicrobe: Downloading, Pre-processing, and Assembling NEON Soil Microbe Marker Gene Sequence Data

Combine 16S Read-Tracking Tables

Description

Convenience function for combining the read-tracking tables across the trimming, filtering, and DADA steps of the 16S processing pipeline.

Usage

combineReadTrackingTables16S(trim_table, filter_table, dada_table)

Arguments

trim_table	Read-tracking table output by trimPrimers16S.
filter_table	Read-tracking table output by qualityFilter16S.
dada_table	Read-tracking table output by runDada16S.

Value

An integer matrix with columns representing each step in the DADA2 16S processing pipeline, and rows representing each input sample, with values representing the read counts remaining at that step for each sample.

claraqin/neonMicrobe documentation built on April 11, 2024, 11:47 a.m.