TransRate: reference-free quality assessment of de novo transcriptome assemblies

By Richard D. Smith-Unna, Chris Boursnell, Rob Patro, Julian M. Hibberd, Steven Kelly. bioRxiv, 2015

762 citations recorded by the source corpus.

TransRate is a tool for reference-free quality assessment of de novo transcriptome assemblies. Using only sequenced reads as the input, TransRate measures the quality of individual contigs and whole assemblies, enabling assembly optimization and comparison. TransRate can accurately evaluate assemblies of conserved and novel RNA molecules of any kind in any species. We show that it is more accurate than comparable methods and demonstrate its use on a variety of data.

View Paper: https://www.semanticscholar.org/paper/813849f842c5714e19e5c9fccafb3e42d2fcdae9

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Citations in the corpus

• Transcriptomics technologies (2017, background): “The first metrics used to describe transcriptome assemblies, such as N50, have been shown to be misleading [97], and subsequently improved evaluation methods are now available [98][99].”