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q-bio.QM2022★ 1 cited
Cophylogeny Reconstruction Allowing for Multiple Associations Through Approximate Bayesian Computation
Blerina Sinaimeri, Laura Urbini, Marie-France Sagot +1
Phylogenetic tree reconciliation is employed for the examination of coevolution between host and symbiont species. An important concern is the requirement for dependable cost value…
q-bio.QM2013
A polynomial delay algorithm for the enumeration of bubbles with length constraints in directed graphs and its application to the detection of alternative splicing in RNA-seq data
Gustavo Sacomoto, Vincent Lacroix, Marie-France Sagot
We present a new algorithm for enumerating bubbles with length constraints in directed graphs. This problem arises in transcriptomics, where the question is to identify all alterna…