Kneaddata

From UFRC
Revision as of 14:36, 4 September 2020 by Maxprok (talk | contribs) (Created page with "Category:SoftwareCategory:Phylogenetics {|<!--CONFIGURATION: REQUIRED--> |{{#vardefine:app|Kneadata}} |{{#vardefine:url|https://huttenhower.sph.harvard.edu/kneaddata/}...")
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to navigation Jump to search

Description

Kneadata website  

KneadData is a tool designed to perform quality control on metagenomic sequencing data, especially data from microbiome experiments. In these experiments, samples are typically taken from a host in hopes of learning something about the microbial community on the host. However, metagenomic sequencing data from such experiments will often contain a high ratio of host to bacterial reads. This tool aims to perform principled in silico separation of bacterial reads from these “contaminant” reads, be they from the host, from bacterial 16S sequences, or other user-defined sources.

Environment Modules

Run module spider Kneadata to find out what environment modules are available for this application.

System Variables

  • HPC_KNEADATA_DIR - installation directory
  • HPC_KNEADATA_BIN - executable directory