Light-RCV: a lightweight read coverage viewer for next generation sequencing data

BMC Bioinformatics

Table 3 Feature comparison of NGS viewers.

	Savant	Tablet	IGV	Light-RCV
Read coverage
Base level¹	Yes	No	Yes	Yes
Whole chromosome²	Partial	Yes	Partial	Yes
Multi-resolution model³	Yes	No	Yes	Yes
Embeddable in other program⁴	No	No	No	Yes

¹One point of Tablet read coverage curve represents 500 bps. ²Savant and IGV do not show read coverage when the viewing range is greater than 20 kb and 70 kb, respectively. ³Savant and IGV claimed to have multi-resolution model for all data types according to their documents. However, they did not clearly indicated that read coverage is included. Multi-resolution model is not visible to users. Instead, this technique is used to expedite visualization at all scales of viewing ranges. The time comparison under different viewing ranges in Table 1 provides a performance evaluation of the multi-resolution model. This model is a key to achieve both base-level read and whole chromosome read coverage in Light-RCV. However, the reasons why Savant and IGV limited the viewing range of read coverage are unknown. ⁴Embeddable is also not visible to regular users but is useful for developers.

ISSN: 1471-2105