GenNext_klinik has a user-friendly interface for uploading sequencing data. First log in to your account and go to the “Run” section. After selecting the “node/edge” available for analysis, you will be connected through the platform. After entering “Sample Name” and “Process Type” on the screen you are directed to, your file (which should be in a compatible format) is uploaded to the relevant field. The platform will guide you through the next steps after the upload is complete.

The analysis workflows used in GenNext_klinik accept raw data (.fastq extension) and BAM (.bam extension) files that are already aligned to the reference genome as input. Depending on the type of data uploaded, the GenNext_klinik detect the data type and starts processing the data from the appropriate step. The platform also accepts ready-to-annotate variant files (VCF, with .vcf extension) into the workflow. GenNext_klinik detects the file type for each data uploaded to the platform by the user complies with industry standards, and then performs the necessary processing.

The reason for the warnings encountered while uploading data may be that the files you want to upload are incompatible (see GenNext:file upload document-LINK for details). After making sure that the files you want to upload are in the appropriate format, you can perform the upload. If you want to upload BAM files and VCF files, do not forget to check the box indicating the type of file in the relevant field on the upload screen. The platform is programmed to treat uploaded files as raw data if the box is not checked. If you still encounter problems, you can contact our support team.

On the GenNext platform, raw data and BAM files are stored for 3 months during the active membership period if GenNextCloud is used. Near the end of the three-month period, the user will be notified that access to their data via the GenNext_klinik platform will end. There is no time limit for the storage of VCF files uploaded or generated with the GenNext_klinik analysis workflow.