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more informative introduction
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warrenson committed Aug 18, 2022
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_Host environment intersection miRNA annotation_ pipeline

## Introduction
HEImiRA (Host Environment Intersection miRNA Annotation) pipeline is built with
Nextflow using singularity containers from the [Galaxy Project] and a custom
python container, to annotate miRNAs represented in sRNA-Seq data against the
[miRBase](https://www.mirbase.org/) miRNA mature reference sequences.
HEImiRA (Host Environment Intersection miRNA Annotation) pipeline annotates
miRNAs from sRNA-Seq in relation to the taxonomy of a given host and target
organism.

The pipeline was designed and used for quantifying cross-kingdom miRNA
transfer, but could be directly applied to host-pathogen sample miRNA
annotation, and possibly other areas.

HEImiRA pipeline is built with Nextflow using singularity containers from the
[Galaxy Project] and a custom python container, to annotate miRNAs represented
in sRNA-Seq data against the [miRBase](https://www.mirbase.org/) miRNA mature
reference sequences.

## Summary
### Input
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