OOIR: Observatory of International Research

Papers

(The TQCC of Algorithms for Molecular Biology is 5. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2022-05-01 to 2026-05-01.)

Article	Citations
Improving spliced alignment by modeling splice sites with deep learning	35
Unifying duplication episode clustering and gene-species mapping inference	24
Mem-based pangenome indexing for k-mer queries	18
Fast, parallel, and cache-friendly suffix array construction	13
Efficient gene orthology inference via large-scale rearrangements	12
Binning long reads in metagenomics datasets using composition and coverage information	12
On the complexity of non-binary tree reconciliation with endosymbiotic gene transfer	11
Embedding gene trees into phylogenetic networks by conflict resolution algorithms	11
Correction: Heuristic shortest hyperpaths in cell signaling hypergraphs	9
Pattern matching with Elastic-Degenerate strings and Elastic-Founder graphs	9
Quartets enable statistically consistent estimation of cell lineage trees under an unbiased error and missingness model	8
AlfaPang: alignment free algorithm for pangenome graph construction	8
Constructing phylogenetic networks via cherry picking and machine learning	8
Swiftly identifying strongly unique k-mers	7
New algorithms for structure informed genome rearrangement	7
On a greedy approach for genome scaffolding	7
Faster computation of left-bounded shortest unique substrings	6
Unbiased anchors for reliable genome-wide synteny detection	6
Estimating similarity and distance using FracMinHash	6
Recombinations, chains and caps: resolving problems with the DCJ-indel model	5
Reconstructing rearrangement phylogenies of natural genomes	5