Analysis of transcriptome assembly pipelines for wheat | IEEE Conference Publication | IEEE Xplore

Abstract:

With advances in next-generation sequencing technologies, transcriptome sequencing has emerged as a powerful tool for performing transcriptome analysis for various organi...Show More

Abstract:

With advances in next-generation sequencing technologies, transcriptome sequencing has emerged as a powerful tool for performing transcriptome analysis for various organisms. Obtaining draft transcriptome of an organism is a complex multi-stage pipeline with several steps such as data cleaning, error correction and assembly. Based on the analysis performed in this paper, we conclude that the best assembly is produced when the error correction method is used with Velvet Oases and the “multi-k” strategy that combines the 5 k-mer assemblies with highest N50. Our results provide valuable insight for designing good de novo transcriptome assembly pipeline for a given application.
Date of Conference: 15-18 December 2016
Date Added to IEEE Xplore: 19 January 2017
ISBN Information:
Conference Location: Shenzhen, China

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