Improved transcriptome assembly using a hybrid of long and short reads with StringTie

HTSlib: C library for reading/writing high-throughput sequencing data

(2021) James K Bonfield et al.   GigaScience

Oxford Nanopore MinION Direct RNA-Seq for Systems Biology

(2021) Mikhail A. Pyatnitskiy et al.   Biology-Basel

TALC: Transcript-level Aware Long Read Correction

(2020) Lucile Broseus et al.   BIOINFORMATICS

Extending rnaSPAdes functionality for hybrid transcriptome assembly

(2020) Andrey D. Prjibelski et al.   BMC BIOINFORMATICS

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY