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Metagenome analysis using the Kraken software suite.
Lu J, Rincon N, Wood DE, Breitwieser FP, Pockrandt C, Langmead B, Salzberg SL, Steinegger M. Lu J, et al. Among authors: pockrandt c. Nat Protoc. 2022 Dec;17(12):2815-2839. doi: 10.1038/s41596-022-00738-y. Epub 2022 Sep 28. Nat Protoc. 2022. PMID: 36171387 Free PMC article. Review.
GenMap: ultra-fast computation of genome mappability.
Pockrandt C, Alzamel M, Iliopoulos CS, Reinert K. Pockrandt C, et al. Bioinformatics. 2020 Jun 1;36(12):3687-3692. doi: 10.1093/bioinformatics/btaa222. Bioinformatics. 2020. PMID: 32246826 Free PMC article.
CHESS 3: an improved, comprehensive catalog of human genes and transcripts based on large-scale expression data, phylogenetic analysis, and protein structure.
Varabyou A, Sommer MJ, Erdogdu B, Shinder I, Minkin I, Chao KH, Park S, Heinz J, Pockrandt C, Shumate A, Rincon N, Puiu D, Steinegger M, Salzberg SL, Pertea M. Varabyou A, et al. Among authors: pockrandt c. Genome Biol. 2023 Oct 30;24(1):249. doi: 10.1186/s13059-023-03088-4. Genome Biol. 2023. PMID: 37904256 Free PMC article.
14 results