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README.md

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Readme

This directory contains the code used for the bioinformatics analysis applied to obtain the results for the manuscript: "Differential expression of serum microRNAs implies altered CD4+ T cell development in severe equine asthma" There are three main scripts:

  1. File "code_mirdeep.sh" contains the code for the mirna expression profiling and novel miRNA identification using miRDeep2
  2. File "differential_expression_code.R" contains the R code for the differential expression analysis using DESeq2 and edgeR
  3. File "KStest_code.py" contains the python code that was used for running the iterative KS-test appraoch and based on an approach published recently by Farrell and Shaughnessy et al. (2015) in PLOS one