Table 2

Categorization of insert happiness

Insert Type

Description

Color


Happy

Correctly oriented and sized

Green

Stretched

Correctly oriented, but larger than expected

Blue

Compressed

Correctly oriented, but smaller than expected

Yellow

Mis-oriented

Mates point away or in same direction

Red

Linking

Mates are in different scaffolds

Pink

Singleton

The read's mate is unplaced

Purple

Unmated

No mate associated with read

Grey


Inserts with size violations (stretched or compressed) are reported with respect to a user configurable parameter for the maximum acceptable number of standard deviations from the library mean for that insert (default 2).

Schatz et al. Genome Biology 2007 8:R34   doi:10.1186/gb-2007-8-3-r34

Open Data