recipe mirtrace

miRTrace is a new quality control and taxonomic tracing tool developed specifically for small RNA sequencing data (sRNA-Seq). Each sample is characterized by profiling sequencing quality, read length, sequencing depth and miRNA complexity and also the amounts of miRNAs versus undesirable sequences (derived from tRNAs, rRNAs and sequencing artifacts). In addition to these routine quality control (QC) analyses, miRTrace can accurately and sensitively resolve taxonomic origins of small RNA-Seq data based on the composition of clade-specific miRNAs. This feature can be used to detect cross-clade contaminations in typical lab settings. It can also be applied for more specific applications in forensics, food quality control and clinical diagnosis, for instance tracing the origins of meat products or detecting parasitic microRNAs in host serum.

Homepage

https://github.com/friedlanderlab/mirtrace

License

GPL-2.0

Recipe

/mirtrace/meta.yaml

Links

biotools: mirtrace, doi: 10.1186/s13059-018-1588-9

package mirtrace

(downloads) docker_mirtrace

Versions

1.0.0-0

Depends openjdk

>=8.0.144

Depends python

Requirements

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install mirtrace

and update with:

conda update mirtrace

or use the docker container:

docker pull quay.io/biocontainers/mirtrace:<tag>

(see mirtrace/tags for valid values for <tag>)