What it does

This tool takes the user-provided information about a next-generation sequencing run and constructs a valid header in the SAM file format from it.

The result file can be used by the tools Convert and Reheader or in the SNAP Read Alignment step to add run metadata to sequenced reads files (or to overwrite pre-existing information).

Note:

MiModD requires run metadata for every input file at the Alignment step !

Tip:

While you can do Alignments from fastq file format by providing a custom header file directly to the SNAP Read Alignment tool, we recommend you to first convert all input files to and archive all datasets in SAM/BAM format with appropriate header information prior to any downstream analysis. Although a bit more time-consuming, this practice protects against information loss and ensures that the input datasets will remain useful for others in the future.