Table 1 Summary of existing removal tools listed together with some of their relevant features
From: Removing duplicate reads using graphics processing units
Tool | Strategy | Libraries | Platform | Type |
|---|---|---|---|---|
Picard MarkDuplicates | alignment-based | single- and paired-end | Illumina and 454 | nearly-identical |
samtools rmdup | alignment-based | single- and paired-end | Illumina and 454 | nearly-identical |
SEAL | alignment-based | paired-end | Illumina | nearly-identical |
FastX-Toolkit Collapser | alignment-free | single-end | Illumina and 454 | identical |
FastUniq | alignment-free | paired-end | Illumina and 454 | identical |
Fulcrum | alignment-free | single- and paired-end | Illumina and 454 | nearly-identical |
CD-HIT-454 | alignment-free | single- and paired-end | 454 | nearly-identical |
CD-HIT-DUP | alignment-free | single- and paired-end | Illumina | nearly-identical |