Genomatix Software GmbH - Upload Data into ElDorado

Input
BED File Input	Input data are accepted as a tab delimited file in BED / bigBed file format containing the input regions specified at least by chromosome number, start position and end position (in this order). The maximum amount of regions and their maximum length can differ for various tasks. The limits are usually shown on top of the input pages. Within this section you can either choose from previously uploaded BED files or add a new bed file to the list (by clicking "Add Bed file...") When adding a new file, a new window will open, asking you to either upload one or several BED files from your local computer or import a BED file from the GMS (see more details) or import a BED file from the GGA (see more details) For the new BED files, you will have to select the correct organism, as the organism and the genome build are associated with the BED file for future use (the default is your latest choice in the current session). Note that BED files critically depend on the underlying genome build, which can be changed by selecting a different ElDorado version on the top right of the page before uploading a BED file. You can see the list of genomes available in ElDorado. Note that almost all browsers have a general upload limit of 2 GB, i.e. BED files bigger than this size should be zipped before uploading from your local computer. This restriction does not apply when using the direct import from the GGA/GMS. Optionally you can specify a name for saving uploaded BED files on the server, otherwise the name of the uploaded file will be used. If several files are uploaded, the string given here will be used as prefix for each BED file name. If any of the regions in the input file cannot be completely assigned to the selected genome (e.g. wrong chromosome numbering or wrong positions within a chromosome), an error message will appear and the regions will be skipped. If no valid region is found in an uploaded file, the complete file will be skipped. After one or several BED files were uploaded successfully, and after closing the popup window, the list of available BED files will be automatically updated. Uploaded BED files can be deleted from the project anytime via the project management.
Duplicates	If the checkbox "Ignore duplicates" is activated, all regions with the same chromosome, start and end position and same strand will be reduced to one data point, i.e. the number of uploaded data points can be smaller than the number of regions in the input file.
Identification of data
Identification	The uploaded data will be identified with a corresponding label and description. The label will be used for displaying the elements in the graphic components of ElDorado, the description is additionally used for selection of user-defined data. Note that the label must be unique within the set of your uploaded data, otherwise a warning will appear.

Input data are accepted as a tab delimited file in BED / bigBed file format containing the input regions specified at least by chromosome number, start position and end position (in this order).
The maximum amount of regions and their maximum length can differ for various tasks. The limits are usually shown on top of the input pages.

When adding a new file, a new window will open, asking you to either

upload one or several BED files from your local computer
or import a BED file from the GMS (see more details)
or import a BED file from the GGA (see more details)

For the new BED files, you will have to select the correct organism, as the organism and the genome build are associated with the BED file for future use (the default is your latest choice in the current session).
Note that BED files critically depend on the underlying genome build, which can be changed by selecting a different ElDorado version on the top right of the page before uploading a BED file. You can see the list of genomes available in ElDorado.

Note that almost all browsers have a general upload limit of 2 GB, i.e. BED files bigger than this size should be zipped before uploading from your local computer. This restriction does not apply when using the direct import from the GGA/GMS.

Optionally you can specify a name for saving uploaded BED files on the server, otherwise the name of the uploaded file will be used. If several files are uploaded, the string given here will be used as prefix for each BED file name.

If any of the regions in the input file cannot be completely assigned to the selected genome (e.g. wrong chromosome numbering or wrong positions within a chromosome), an error message will appear and the regions will be skipped. If no valid region is found in an uploaded file, the complete file will be skipped.

After one or several BED files were uploaded successfully, and after closing the popup window, the list of available BED files will be automatically updated.

Uploaded BED files can be deleted from the project anytime via the project management.

Upload data into ElDorado

Introduction

Parameters