MiSeq uploader may need to upload index reads I1/I2
Shaun called saying they may be doing runs that include the "Index reads" as well as the normal reads. These files are generated similar to the normal fastq files, but have an
I1/I2 designation rather than
R1/R2. This type of sequencing may become more common so we may need to add these to the upload for the MiSeq. Note this must also be added on the IRIDA end to accept this pair format.