Instructions

Version

You can choose which version of the software you want to use from the drop down list.

Input data type

You must select what format you file has. The input files must be FASTA or FASTAQ format.

• Raw reads should generally end with ".fastq.gz" or ".fq.gz". In addition, paired-end sequencing files should include either "_R1" and "_R2" or "_1" and "_2" in their names.
• Single end read files, both short- and long-read files should be marked with a "_SE" specifier.
• Assemblies should generally end with “.fasta”, ".fna" or “.fa”.

To avoid problems caused by file names, we only allow a limited selection of ASCII characters: a-z, A-Z, 0-9, "_" (underscore), "-" (hyphen), "." (full stop)

Upload and submit job

Click on the 'Submit job' button to submit your job after having attached the files. The waiting page will be displayed and constantly updated until it terminates and the server output page appears in your browser. You also have the option to input your email and be notified as soon as your the results are ready. The data is available for one week from the moment the results are created.

Output

ListPred classifies isolates into low, medium, or high virulence risk categories and into sensitive or tolerant groups for benzalkonium chloride tolerance. The output from the web application will be a zip compressed folder containing two csv files, i.e., "combined_predictions_out_categorical.csv" and "combined_predictions_out_numerical.csv" which describe the predictions as category labels and numerical values respectively. Additionally, the folder contains files from the pre-processing steps.