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 2021-04-01 to 2025-04-01.)

Article	Citations
Space-efficient representation of genomic k-mer count tables	27
Mem-based pangenome indexing for k-mer queries	20
Locality-sensitive bucketing functions for the edit distance	16
Compression algorithm for colored de Bruijn graphs	14
Global exact optimisations for chloroplast structural haplotype scaffolding	12
Unifying duplication episode clustering and gene-species mapping inference	12
Natural family-free genomic distance	11
Testing the agreement of trees with internal labels	10
Fast lightweight accurate xenograft sorting	10
Distinguishing linear and branched evolution given single-cell DNA sequencing data of tumors	10
Weighted ASTRID: fast and accurate species trees from weighted internode distances	10
phyBWT2: phylogeny reconstruction via eBWT positional clustering	9
Pfp-fm: an accelerated FM-index	8
Quartets enable statistically consistent estimation of cell lineage trees under an unbiased error and missingness model	8
Fast characterization of segmental duplication structure in multiple genome assemblies	7
Disk compression of k-mer sets	6
Adding hydrogen atoms to molecular models via fragment superimposition	6
Tree diet: reducing the treewidth to unlock FPT algorithms in RNA bioinformatics	6
A new 1.375-approximation algorithm for sorting by transpositions	6
New algorithms for structure informed genome rearrangement	6
Bayesian optimization with evolutionary and structure-based regularization for directed protein evolution	5
Fast, parallel, and cache-friendly suffix array construction	5
Exact transcript quantification over splice graphs	5
Using Robinson-Foulds supertrees in divide-and-conquer phylogeny estimation	5
Median quartet tree search algorithms using optimal subtree prune and regraft	5

Eulertigs: minimum plain text representation of k-mer sets without repetitions in linear time	5
On a greedy approach for genome scaffolding	5
Pangenomic genotyping with the marker array	5