Example of the Web Apollo interface. Moving from top to bottom these example tracks from the honeybee (Apis mellifera) genome display: (A) In-progress gene models interactively being edited by the user. (B) The honeybee consortium's official gene set. (C) Transcripts from the NCBI RefSeq database. (D) Output from MAKER. (E) Output from various different gene prediction programs. (F, I, J) Contigs generated from RNA-seq data for respectively: nurse bees, testes, and ovaries. (G) Coverage map from the nurse bee RNA-seq data. (H) RNA-Seq data from forager bees displayed as a 'heat map'. Note that none of the gene predictions are in agreement regarding intron-exon boundaries in (E), which illustrates why manual review is needed. Web Apollo gives biologists the ability to manually resolve disagreements and create a more accurate set of gene predictions to improve upstream analysis pipelines in subsequent runs, as well as provide a more reliable substrate for downstream analyses.