E-MTAB-1728 - RNA-seq read alignment evaluation
Released on 15 July 2013, last updated on 27 November 2015
Homo sapiens, Mus musculus
To assess the performance of read mapping software for RNA-seq, 26 spliced alignment protocols based on 11 programs and pipelines (BAGET, GEM, GSNAP, GSTRUCT, MapSplice, PALMapper, PASS, ReadsMap, SMALT, STAR and TopHat) were applied to four human and mouse transcriptome data sets.
RNA-seq of coding RNA, co-expression, reference, software variation, species
RNASequel: accurate and repeat tolerant realignment of RNA-seq reads. Wilson GW, Stein LD. :e122 (2015), Europe PMC 26082497
Systematic evaluation of spliced alignment programs for RNA-seq data. Pär Engström, Tamara Steijger, Botond Sipos, Gregory R. Grant, RGASP Consortium, Nick Goldman, Tim J. Hubbard, Jennifer Harrow, Roderic Guigó, Paul Bertone. Nat Methods 10(12):1185-1191 (2013), Europe PMC 24185836