qualimap2

Galaxy Qualimap 2 is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts.

Note: This tool is a fork of: https://github.com/zipho/qualimap2 with the intent to produce MultiQC compatible outputs.

• Galaxy Tool Wrapper
• Galaxy Workflow

Testing with planemo

• pip install -r requirements.txt
• planemo test --conda_auto_install --conda_auto_init --conda_ensure_channels bioconda

SLURM configuration:

<tool destination="slum_memory" id="toolshed.g2.bx.psu.edu/repos/refinery-platform/qualimap2_bamqc/qualimap_bamqc" />