FIGARO will quickly analyze error rates in a directory of FASTQ files to determine optimal trimming parameters for high-resolution targeted microbiome sequencing pipelines, such as those utilizing DADA2 and Deblur. The mission of this application is identical to the ZymoBIOMICS mission: increasing the reproducibility and standardization of microbiome analysis.

• Version: git-337aa9
• Added: September, 2023
• Link: https://github.com/Zymo-Research/figaro

See versions that are available:

$ module avail figaro

Load one version into your environment and run it:

$ module load figaro/git-337aa9
$ figaro -h

Notes from the sysadmin during installation.

$ cd /tmp
$ git clone https://github.com/Zymo-Research/figaro.git
$ module load python/3.8
$ sudo mkdir -p /export/apps/figaro/git-337aa9
$ sudo chown aorth /export/apps/figaro/git-337aa9
$ python3 -m venv /export/apps/figaro/git-337aa9/venv
$ source /export/apps/figaro/git-337aa9/venv/bin/activate
$ pip install --upgrade pip setuptools wheel
$ pip install -r requirements.txt
$ python setup.py install
$ sudo chown -R root:root /export/apps/figaro/git-337aa9