Fig. 2.

An example of Mora’s approach to read re-assignment. The exact algorithm is outlined in “Re-assignment of reads” section. R1–R4 are four reference genomes labelled with colours, and the 8 reads shown have colour content proportional to the mapping scores with respect to each coloured reference genome. Grey boxes are not reads, but available read assignments based on Mora’s estimated abundances. Step 1: As shown in the red arrows, Mora cannot assign the last read due to the lack of space in R2 and R4 from to the abundance constraint Step 2: shown in the black arrow, we move a more ambiguously assigned read in R2 to R3 instead, opening space in R2. Step 3: We move the un-assigned read to R2, where there is now space