ngsLCA_count: Count Reads and Taxa Numbers

In wyc661217/ngsLCA: Process and Visualize Lca Files and Taxonomic Profiles

Count Reads and Taxa Numbers

Description

Count the reads number and taxa number after each filtering and de-contaminating, as well as in each taxa group. Results will be generated into "path/run/counts/"

Usage

ngsLCA_count(path, run = "run01")

Arguments

path	working directory, same to ngsLCA_profile.
run	name of the run, default is "run01".

Value

Text files and figures showing reads number and taxa number.

Examples

ngsLCA_count(path=system.file("extdata","lca_files",package="ngsLCA"),
             run="run01")


## This will generate tables and figures showing
## the numbers of reads and taxa for "run01". Results
## will be in "path/run01/counts/".

wyc661217/ngsLCA documentation built on June 2, 2025, 12:02 a.m.