Import of PacBio reads

Choosing the PacBio importer will open the dialog shown in figure 15.1. This data type can also be imported using the on-the-fly import functionality described in Launching workflows individually and in batches.

Note: PacBio HiFi reads are not fully supported. Of particular note: Tools that carry out de novo assembly do not support this data type, and quality scores are capped at 64, affecting tools that make use of such scores, e.g. variant detection tools.

Image import_pacbio_files
Figure 15.1: Importing data from PacBio.

We support import of the following file formats containing PacBio reads:

Under General options you have the following choices:

Click Next and choose how the result of the import should be handled. We recommend choosing Save which will save the results directly to the disk.