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.

Installation

Method 1 (using conda):

conda install -c bioconda mirtrace

Method 2 (direct download):

https://github.com/friedlanderlab/mirtrace/releases
(Download the most recent zip-file whose name starts with “mirtrace-“.)

Source

https://github.com/friedlanderlab/mirtrace/

See also the README in this repository.

Paper

https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1588-9

Kang W; Eldfjell Y; Fromm B; Estivill X; Biryukova I; Friedländer MR, 2018. miRTrace reveals the organismal origins of microRNA sequencing data. Genome Biol 19(1):213

If you use miRTrace for your research, please cite our paper.