# NG-meta-profiler

NG-meta-profiler is a collection of predefined pipelines for processing shotgun metagenomes.

1. human-gut.ngl for human gut samples
2. marine.ngl for marine samples
3. mouse-gut.ngl for mouse gut samples
4. dog-gut.ngl for dog gut samples
5. pig-gut.ngl for pig gut samples

These are predefined, but users are encouraged to adapt them to their specific needs.

## INSTALL

1. install [ngless](install.html)
2. install ng-meta-profiler by downloading the appropriate pipeline from github: [https://github.com/ngless-toolkit/ng-meta-profiler](https://github.com/ngless-toolkit/ng-meta-profiler)

## USAGE

To use the profiler, select the appropriate script (e.g., human-gut.ngl for human gut samples), put all the FastQ files from the same sample in the same directory (INPUT-DIRECTORY) with the extension .fq.gz or fastq.gz and run:

ngless human-gut.ngl INPUT-DIRECTORY OUTPUT-DIRECTORY