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--- expression_matrix_file_format [2016/04/26 13:05] – created fsalavert
+++ expression_matrix_file_format [2020/02/20 16:26] (current) – krian
@@ Line 1: / Line 1: @@
 ====== Expression matrix file format ======
-Data matrix expression file is a Tab-separated values file.
+Expression matrix file is a Tab-separated values file.
 A tab-separated values (TSV) file is a simple text format for storing data in a tabular structure (e.g. database or spreadsheet data). Each record in the table is one line of the text file. Each field value of a record is separated from the next by a tab stop character. [[https://en.wikipedia.org/wiki/Tab-separated_values|More about TSV...]]
@@ Line 10: / Line 10: @@
 The first column corresponds to genes, probes or proteins, and the following IDs are accepted:
-  - Ensembl gene
+  * Ensembl gene
-  - HGNC symbol
+  * HGNC symbol
-  - Entrez id
+  * Entrez id
-  - Affy HG U133A probeset
+  * Affy HG U133A probeset
-  - Affy HG U133B probeset
+  * Affy HG U133B probeset
-  - Affy HG U133-PLUS-2 probeset
+  * Affy HG U133-PLUS-2 probeset
-  - Affy HTA 2.0
+  * Affy HTA 2.0
@@ Line 40: / Line 40: @@
 </code>
+For a file example see {{:brca_genes_vals_bn.txt|}}
+**Note**: If probe expression values are provided, these are recodified to gene expression values, obtained as the average value of all the probes mapping in the gene.
-You can download an usable example file from {{:brca_example1_40_exp.txt|here}}
+**The web version of Hipathia is limited to a maximum of 500 samples per dataset. For bigger datasets please use [[http://bioconductor.org/packages/release/bioc/html/hipathia.html|the R Bioconductor Hipathia package]]**
-**Note**: If probe expression values are provided, these are recodified to gene expression values, obtained as the average value of all the probes mapping in the gene.