Bioinformatic support

After sequencing, we perform a quality control to make sure that the delivered data meet our standards. A basic bioinformatic analysis, including de novo assembly of small genomes (<100 Mb) and reads of insert consensus analysis, is also included in the sequencing service.

Secondary analyses can be offered for a fee, depending on the aim of the project.

Additional bioinformatic services

Based on a standardized cost model, we offer additional bioinformatic analyses after sequencing completion. These include:

  • Methylation analysis from PacBio sequencing of native DNA, and variant detection based on a provided reference sequence.
  • Falcon de novo assembly of large genomes (>100 Mb), based on PacBio data.
  • Diploid haplotype phasing with Falcon unzip based on de novo assemblies from PacBio whole genome sequencing.

Data delivery

For delivery of data we collaborate with SNIC-UPPMAX, Uppsala University's resource of high-performance computers, and sequencing data from NGI will be delivered to a project at the delivery resource "GRUS" hosted by SNIC-UPPMAX.

When a sequencing project is ready for delivery, NGI registers a new delivery project with the Swedish National Infrastructure for Computing (SNIC) and data is moved to GRUS. The principal investigator (PI) of the sequencing project will be assigned as the PI of the delivery project. Initially, the PI is the only member and the only person who can access the data on GRUS. Through the SNIC User and Project Repository (SUPR) web interface, the PI can administer the delivery project and add or remove members, as well as assigning a Technical Administrator and a Proxy for the PI. Members of the delivery project are able to retrieve the data from GRUS using any of the methods described in the GRUS user guide.

Data analysis can then be performed using the UPPMAX compute clusters. For more information about SNIC-UPPMAX and how to set up a UPPNEX project for data analysis, please visit the SNIC-UPPMAX webpage

For FAQ and more information about data delivery, please visit the NGI Order Portal.