refine

Table of contents

1. Introduction
2. Input and Output
   1. Input
   2. Output
3. Usage Examples
4. Parameters

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Introduction

The refine command in VAMPIRE is designed to refine the annotation results based on user-defined actions.

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Input and Output

Input

Input	Format	Description	Default
Config	JSON	Parameter set used for the annotation job	None
Annotation	TSV	Detailed annotation results from anno command	None
Motif	TSV	Statistics of detected motifs from anno command	None
Action	TSV	Refinement action provided by user	None

Output

Output	Format	Description	Default
Refined Annotation	TSV	Detailed annotation results (Refined)	None
Refined Concise	TSV	Summary of annotation results (Refined)	None
Refined Motif	TSV	Statistics of detected motifs (Refined)	None
Refined Distance	TSV	Edit distances between detected motifs	None

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Usage Examples

vampire refine -t 6 -o annotation_prefix.refined annotation_prefix action.tsv

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Parameters