💅 Nailpolish Summary Report

A 'duplicate group' is a group of reads which all share the same barcode and UMI.

There are calculating... total duplicate group(s). Only groups with < duplicates are shown in the graph.

Note. Some reads will share a molecular identifier despite originating from different molecules (i.e. false duplicates). They are represented together as duplicate groups in this chart. Nailpolish's false clustering algorithm will be applied during consensus calling to identify and separate these reads into distinct groups. As a result, the final number of groups (and their size distribution) in the consensus calling output may differ.

Each read is classified by the number of reads in its corresponding duplicate group.

There are calculating... total reads. Only reads belonging to groups with < duplicates are shown in the graph.

This table shows the full distribution of duplicate group sizes across the dataset.

Each row corresponds to a group size (number of reads sharing the same barcode and UMI), along with the number of such groups, total reads, and average read length and quality within that group size.

Consensus calling thresholds

• All reads without an identified barcode cannot be grouped into duplicate groups and will be reproduced as-is in the consensus calling output, but are not included in the above graphs or table
• --len (default 0,15000): does not consensus call reads with length outside the specified range; these reads are reproduced as-is in the consensus calling output
• --qual (default unset): does not consensus call reads with mean quality outside the specified range; these reads are reproduced as-is in the consensus calling output
• --max-group-size (default 250): does not consensus call reads belonging to duplicate groups larger than the specified size. Typically, very large groups are false duplicates and consensus calling them has an outsized impact on runtime. These reads are reproduced as-is in the consensus calling output