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Tiglon enables accurate transcriptome assembly via integrating mappings of different aligners.

ABSTRACT: Full-length transcript reconstruction has a pivotal role in RNA-seq data analysis. In this research, we present a new genome-guided transcriptome assembly algorithm, namely Tiglon, which integrates multiple alignments of different mapping tools and builds the labeled splice graphs, followed by a label-based dynamic path-searching strategy to reconstruct the transcripts. We evaluate Tiglon on a simulated dataset and 12 real datasets under the Hisat2 and Star mappings. The results indicate that the integrating techniques of Tiglon exhibit great superiority over the state-of-the-art assemblers, including StringTie2 and Scallop, depending on Hisat2 alignments, Star alignments, or the merged alignments of both. Especially, Tiglon is significantly powerful in recovering lowly expressed transcripts.

SUBMITTER: Zhao X

PROVIDER: S-EPMC8958329 | biostudies-literature | 2022 Apr

REPOSITORIES: biostudies-literature

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Tiglon enables accurate transcriptome assembly via integrating mappings of different aligners.

Zhao Xiaoyu X Yu Ting T

iScience 20220312 4

Full-length transcript reconstruction has a pivotal role in RNA-seq data analysis. In this research, we present a new genome-guided transcriptome assembly algorithm, namely Tiglon, which integrates multiple alignments of different mapping tools and builds the labeled splice graphs, followed by a label-based dynamic path-searching strategy to reconstruct the transcripts. We evaluate Tiglon on a simulated dataset and 12 real datasets under the Hisat2 and Star mappings. The results indicate that th ...[more]

PMID: 35355524

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