The MiSeq Reporter requires the following primary analysis files to begin secondary analysis. The software automatically accesses these files in the run folder.
| File Type | Description |
|---|---|
| RTAComplete.txt | Marker file that indicates that RTA processing is complete. |
| SampleSheet.csv | Provided at the beginning of a sequencing run. Contains analysis workflow and important run information. |
| RunInfo.xml | Identifies high-level run information. |
| *.bcl files | Files contain base calling information. |
| *.filter files | Files contain filter results for each tile. |
| *.locs files | Files contain the locations of all clusters on a tile. |
| Databases | miRbase for human dbSNP for human refGene for human |
| Genomes | Arabidopsis thaliana cow E. coli strain DH10b human (Homo sapiens) build hg19 mouse rat yeast Staphylococcus aureus |
You can upload and use your own reference in FASTA format. Reference FASTA files should be stored in a single folder and have a *.fa or *.fasta extension.