The Assembly Report is one of several reports in the Reports view. This report summarizes the assembly time, the parameters used in constructing the contig, and each stage in the progress of an assembly, as well as the median pair distance and standard deviation for each set of a given sized pair library in an assembly.
To display this report, select a row in the Experiments section of the Explorer panel and click the Show Reports (
) tool or use the View > Reports command. Then use the drop-down menu near the top left of the table to choose Assembly Report.
The table below describes some parameters of interest in this report.
| Parameter | Description |
|---|---|
| Total Assembled Reads | Contains information about reads that made it into the assembly. “Coalesced identical aligned reads” indicates the number of reads that were treated as duplicates. |
| Total Unassembled Reads | Lists reasons why certain reads were not included. |
| Found SNP Cnt (incl. indel lengths) | (Variant assemblies only) Shows the number of SNPs that were found. |
| Assembly Parameters | (Variant assemblies only) Shows the SNP-calling parameters specified in the SeqMan NGen wizard for this assembly. |
| SCRIPT | Below the word “SCRIPT” is the entire assembly script used in SeqMan NGen when creating this assembly. |
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