Download BAM files
IMPORTANT! If you have data from BAM files that you intend to store long term, you can archive the data. For more information, see Archive analyses to an external storage device.
The software gives you the option to download the BAM files, if one or more BAM files are available for an analysis. The following BAM files are available in Ion Reporter™ Software for completed analyses:
If only RNA samples are analyzed, a mapped BAM is available in for download.
For DNA samples, two BAM files can be available for download: a mapped BAM and a processed BAM.
A mapped BAM is a file that maps the BAM file that is uploaded to Ion Reporter™ Software to the reference genome and based on selected alignment parameters. The processed BAM file, that is available only for DNA samples, is the BAM file that contains the reads processed by Variant Caller module in Ion Reporter™ Software, where read trimming and read filtering can be applied.
Note: The processed BAM file is much smaller than the mapped BAM file. For DNA samples, download the processed BAM to a computer for review to save time and computer hard drive disk space.
- In the Analyses tab, click Overview, then select the analysis of interest.
- Select one of the following options:
To download the BAM file from Ion Reporter™ Software:
- Click the Home tab, then click Notifications.
- Find the download file in the list. You can click Downloads to narrow the list, or see the timestamp.
- Click (Download).
The mapped file is named merged.bam and the processed BAM is named merged.bam.ptrim.bam. An unmapped BAM file is named the same as the file name that was used to define the samples used in the analysis launch.