TALC: Transcript-level Aware Long-read Correction
نویسندگان
چکیده
منابع مشابه
LoRDEC: accurate and efficient long read error correction
MOTIVATION PacBio single molecule real-time sequencing is a third-generation sequencing technique producing long reads, with comparatively lower throughput and higher error rate. Errors include numerous indels and complicate downstream analysis like mapping or de novo assembly. A hybrid strategy that takes advantage of the high accuracy of second-generation short reads has been proposed for cor...
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Motivation High-throughput sequencing has transformed the study of gene expression levels through RNA-seq, a technique that is now routinely used by various fields, such as genetic research or diagnostics. The advent of third generation sequencing technologies providing significantly longer reads opens up new possibilities. However, the high error rates common to these technologies set new bioi...
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For the purpose of the test, error profiles of all real datasets were determined, by aligning them to the corresponding transcriptome using GraphMap (https://github.com/isovic/graphmap) and by running the script errorrates.py from https://github.com/isovic/samscripts. Due to low quality of alignment of ONT Minion RNA reads to the transcriptome, an additional dataset of ONT MinION R9 DNA reads w...
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MOTIVATION Second-generation sequencing technologies produce a massive amount of short reads in a single experiment. However, sequencing errors can cause major problems when using this approach for de novo sequencing applications. Moreover, existing error correction methods have been designed and optimized for shotgun sequencing. Therefore, there is an urgent need for the design of fast and acc...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2020
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btaa634