16S RNA analysis pipeline incorporates the following modules: [ trim ]-[ cdhit ]-[ mothur.align ]-[ mothur.dist ]. The pipeline web-interface includes both advanced and preconfigured settings. Advanced settings can configure each module to process data with specific settings. Most of these settings are already preconfigured with default values. If you mistakenly changed advanced setting and want to reverse them back to default you need to refresh browser ("refresh" or F5 button). The required settings include input fields required for all modules and thus must not be left empty. These include sequence file, primer length and barcodes. After starting the pipeline the process monitor will indicate which module is currently running and will report when the last has finished and data can be collected. Successful run will create a virtual folder and put all output files collected at each step into this folder. Final ‘result’ page will display the link to the generated folder where you can collect your data from.
Please fill in the following fields: forward and [optionally] reverse primer length, barcodes with corresponding group name for each barcode. Navigate to sequence file and press ‘start‘ button. Please consult to corresponding manuals on how to twick advanced settings for the included modules. Faulty parameters may result in no output data produced.