Chez Charles/ biblio/ Differential analysis of gene regulation at transcript resolution with RNA-seq.

Trapnell C, Hendrickson DG, Sauvageau M, Goff L, Rinn JL, Pachter L.

Nat Biotechnol. 2012 Dec 9;31(1):46-53. doi: 10.1038/nbt.2450. Epub 2012 Dec 9.

Differential analysis of gene regulation at transcript resolution with RNA-seq.

For each gene, determines the maximum-likelihood assignment of fragments to isoforms.