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File Formats

Contents

  1. Name assignment of probes
  2. Labels of loci
  3. Fold-change assignment
  4. .graph files
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1. Name assignment of probes

Each line of this tab-delimited file gives mapping from probes to loci. In most cases, a probe maps to exactly one locus. However, sometimes a probe maps to multiple loci and we concatenate them with separator. Here are some examples: 
244910_s_at	ATMG00750;AT2G07686							
244911_at	ATMG00820							
244912_at	AT2G07783;ATMG00830							
244913_at	ATMG00840							
244914_at	ATMG00850;AT2G07682							
244915_s_at	ATMG00860;AT2G07682							
244916_at	ATMG00880;AT2G07682							
244917_at	ATMG00870							
244918_at	ATMG00890							
244919_at	AT2G07768;ATMG00960							
244920_s_at	AT2G07751;ATMG00990							
244921_s_at	ATMG01000

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2. Labels of loci

This tab-delimited file describes naming of loci. Meaningful names like gene names or gene symbols can be assigned for replacing locus accessions for making pictures. Each line of this file contains exactly one locus and its name.
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3. Fold-change assignment

This tab-delimited file describes fold-changes of probes. Each line contains a probe and a fold-change value (log base 2). It should be noticed that the string representing a probe should be the same with that in the Name assignment of probes.
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4. .graph files

A .graph file, which is tab-delimited, is exactly an adjacency list. That is, the first token of every line represents a node, and rest tokens of this line represents nodes connected to the first token.