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TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions., , , , , и . Genome Biol, 14 (4): R36 (апреля 2013)Ballgown bridges the gap between transcriptome assembly and expression analysis, , , , , и . Nat Biotech, 33 (3): 243--246 (марта 2015)Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks, , , , , , , , , и . Nat. Protocols, 7 (3): 562--578 (марта 2012)Gene Recovery of Two Genome-Filtration Sequencing Techniques When Applied to the Maize Genome., , , , , , , , и . CSB, стр. 594-595. IEEE Computer Society, (2004)The TIGR Gene Indices: Analysis of gene transcript sequences in highly sampled eukaryotic species, , , , , , , , , и . Nucleic Acids Research, 29 (1): 159--164 (2001)Detection of Lineage-Specific Evolutionary Changes among Primate Species., , и . BMC Bioinform., (2011)TieBrush: an efficient method for aggregating and summarizing mapped reads across large datasets., , , и . Bioinform., 37 (20): 3650-3651 (2021)The TIGR Gene Indices: reconstruction and representation of expressed gene sequences., , , , и . Nucleic Acids Res., 28 (1): 141-145 (2000)Improved transcriptome assembly using a hybrid of long and short reads with StringTie., , , и . PLoS Comput. Biol., (2022)StringTie enables improved reconstruction of a transcriptome from RNA-seq reads, , , , , и . Nat Biotech, 33 (3): 290--295 (марта 2015)