Comment on “TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions” by Kim et al.
Alexander Dobin, Thomas R. Gingeras
The paper re-examines the accuracy of TopHat2 by identifying methodological deficiencies and demonstrates that correcting them improves alignment accuracy compared to TopHat2.
bioRxiv · Nov 22, 2013 · PreprintBioinformatics