Figure 2.

Published tools available for including repetitive regions in several common genomics analysis protocols. These have been divided into those that are geared towards RNA expression analysis (RNA-seq), small RNA expression analysis (sRNA-seq), genome and chromatin binding factors (ChIP-seq), RNA-binding factors (RIP/CLIP-seq) and DNA methylation analysis (DNA methylation-seq) A table describing these tools (electronic supplementary material, table S1) also provides links and references for the software and associated publications.