Onyx

What is Onyx?

Onyx allows the annotation and calculus of know miRNA differential expression levels from High-Throughput sequencing data.This Pipeline consist in Quality Analysis, Trimming, Mapping, Annotation and Expression Analysis.According with the studies puublished It is compatible with match-pair and non match-pair experimental design. The output is a summary of the normalized levels (TMM), the log Fold Change (logFC), the P Value, and the False Discovery Rate (FDR).

Pipeline Overview

How to use Onyx?

Just execute the onyx script after config file configuration.

$ bash onyx.sh config.txt

Tools Required.

*Quality Analysis: fastqc (v.0.11.2)

*Trimming: Cutadapt (v.1.4.1)

*Mapping: Bowtie (v.1.11)

*Annotation: Htseq-count (v.0.5.4p5)

*Expression Analysis: edgeR (R v.2.15.1)

*Operative System: Unix