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--- data_types [2010/09/27 14:35]
mbleda
+++ data_types [2017/05/24 10:36] (current)
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+===== Data Types =====
+[[Babelomics]] has internally defined data types. Each file you upload to [[Babelomics]] or you generate using the software is tagged with one or more reserved words identifying such //data types//.
+Data types are useful to avoid computation mistakes and also to help you doing a meaningful analysis.
+You cannot use all data files within all [[Babelomics]] tools. Only certain data types can be selected from within each tool, those for which the tool or method has been devised for.
+Babelomics defines and uses different data type for internal usage and validation:
+   * **Microarray raw data**
+   * **Expresion data matrix**
+   * **ID lists**
+   * **Newick format**
+=== Expression data matrix ===
+Expression matrices are __numerical__ structures used to store expression data for **many** genomic **features** (genes, transcripts, exons...) form **several samples** (usually microarrays).
+Babelomics arranges **features in rows** and **samples in columns**.
+The first column of the matrix contains a name or **ID** for the genomic **feature** in each row. The first row of the file contains a name or **ID for the sample**.
+These values are usually stored in **tab delimited text files**; meaning that the columns of the file are separated by the TAB character.
+In the upper left top corner of the matrix the tag **#NAMES** is used by Babelomics to indicate that IDs are present in the matrix.
+In the firs rows of the file there may be some comment lines starting by **#**.
+An **example** of expression matrix file will look like this:
+;#;
+{{images:data_types_expression_matrix.png|Expression matrix}}
+;#;