This directory contains test clone data annotated by the MiXCR annotation tool. This directory consists of an example MiXCR clone file and an accompanying repertoire metadata file. A detailed description of using MiXCR is beyond the scope of this document, for more details please visit the MiXCR documentation page (https://mixcr.readthedocs.io/en/latest/)
The example data in this directory is a small subset of the data from the paper "Next-Generation Sequencing of T and B Cell Receptor Repertoires from COVID-19 Patients Showed Signatures Associated with Severity of Disease from Schultheiß et al. The data set consists of a set of sequence annotations and clones from a single repertoire from this study. As such, it should only be considered in the context of a test data set and it should not be considered a representative sample of the data from this study. The data set was curated using the iReceptor Data Curation process. The data set, in its entirety, is available through the iReceptor Scientific Gateway.
The example data set consists of two data files. The first file is a repertoire metadata file, as a UTF-8 encoded CSV file. The file consists of a header line, which contains the field names that will be written to the repository, followed by a single metadata line for a single repertoire from the above study. In a typical repertoire metadata file, there would be a single line for each repertoire in the study. The second file is a clone file for this repertoire, as annotated using the MiXCR annotation tool. The file is a typical annotation output file from MiXCR.
Please refer to the loading data section of the iReceptor Turnkey documentation on how to load this data into an iReceptor Turnkey repository.