NextGen Workbench

The way the bioinformatics should be...

Input

Working with files is easy. Use the Sample Explorer to locate your SFF/FastQ files. In the File Type Selector drop box choose SFF or FastQ. Based on this, the program will show only SFF or FastQ files and several options may be or may not be available.

To load a SFF/FastQ file   Double click a SFF/FastQ file to load it. You can also double click a SFF/FastQ file in Windows Explorer. The program will automatically start and load that file. Please note that fire you will have to associate your program with SFF/FastQ files in 'Settings'. You can also open a SFF/FastQ file by dragging that file over program's desktop icon or from command line.     FastQ encoding   An additional panel called 'Encoding' will appear when you are working with FastQ files. This allows you to specify file's encoding. Choosing 'Auto detect' will add few extra seconds to the processing time. Therefore, choose the appropriate encoding (if you know it).     Converting to a different encoding   The program allows you to convert the current FastQ encoding to a different encoding.     Converting to a different format   To convert SFF files to FastQ/Fasta use the Conversion module.     The log   The log will show you information about the open file. In case of failure it will show your the reason.

Output

The file format output by the program can be set in the File format panel. All filters and tools will respect the settings in this panel.

Please note that SFF can be converted to FastQ (or Fasta) but FastQ cannot be converted to SFF. Therefore, the SFF option will be unavailable if the input file is a FastQ.

Loading files directly from Win Explorer

Associating NextGen Workbench with SFF/FastQ files will allow you to open SFF/FastQ files directly from Windows Explorer when you double click them.

To associate NextGen Workbench with SFF/FastQ files do to 'Settings' and click a three 'Associate' buttons.