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DrTransformer: heuristic cotranscriptional RNA folding using the nearest neighbor energy model.

, , and . Bioinform., (January 2023)

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RNA folding with hard and soft constraints., , and . Algorithms Mol. Biol., (2016)Evolving AVX512 Parallel C Code Using GP., and . EuroGP, volume 11451 of Lecture Notes in Computer Science, page 245-261. Springer, (2019)Improving SSE parallel code with grow and graft genetic programming., and . GECCO (Companion), page 1537-1538. ACM, (2017)Modified RNAs and predictions with the ViennaRNA Package., , , and . Bioinform., (November 2023)Efficient Algorithms for Co-folding of Multiple RNAs., , , and . BIOSTEC (Selected Papers), volume 1400 of Communications in Computer and Information Science, page 193-214. Springer, (2020)Local RNA folding revisited., , , , , , and . J. Bioinform. Comput. Biol., 21 (4): 2350016:1-2350016:19 (August 2023)RNA Folding Algorithms with G-Quadruplexes., , , , , , , and . BSB, volume 7409 of Lecture Notes in Computer Science, page 49-60. Springer, (2012)TSSAR: TSS annotation regime for dRNA-seq data., , , , , and . BMC Bioinform., (2014)Mono-valent salt corrections for RNA secondary structures in the ViennaRNA package., , , and . Algorithms Mol. Biol., 18 (1): 8 (December 2023)2D Meets 4G: G-Quadruplexes in RNA Secondary Structure Prediction., , , , , , , and . IEEE ACM Trans. Comput. Biol. Bioinform., 10 (4): 832-844 (2013)