OOIR: Observatory of International Research

Papers

(The H4-Index of Molecular Ecology Resources is 38. 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 2020-10-01 to 2024-10-01.)

Article	Citations
ASAP: assemble species by automatic partitioning	724
Dsuite ‐ Fast D‐statistics and related admixture evidence from VCF files	394
pixy: Unbiased estimation of nucleotide diversity and divergence in the presence of missing data	262
CPGView: A package for visualizing detailed chloroplast genome structures	256
Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird‐of‐paradise	100
Extending approximate Bayesian computation with supervised machine learning to infer demographic history from genetic polymorphisms using DIYABC Random Forest	79
SCycDB: A curated functional gene database for metagenomic profiling of sulphur cycling pathways	73
Experimental support for genomic prediction of climate maladaptation using the machine learning approach Gradient Forests	60
Reference genome and demographic history of the most endangered marine mammal, the vaquita	56
Construction of a chromosome‐level genome and variation map for the Pacific oyster Crassostrea gigas	53
Complex interactions between environmental DNA (eDNA) state and water chemistries on eDNA persistence suggested by meta‐analyses	51
Chromosomal‐level genomes of three rice planthoppers provide new insights into sex chromosome evolution	50
Integrating eDNA metabarcoding and simultaneous underwater visual surveys to describe complex fish communities in a marine biodiversity hotspot	50
Strategies for sample labelling and library preparation in DNA metabarcoding studies	50
Improving the reliability of eDNA data interpretation	50
pr2‐primers: An 18S rRNA primer database for protists	49
A chromosome‐level assembly of the black tiger shrimp (Penaeus monodon) genome facilitates the identification of growth‐associated genes	48
Improving metabarcoding taxonomic assignment: A case study of fishes in a large marine ecosystem	48
A high‐quality genome assembly of the eggplant provides insights into the molecular basis of disease resistance and chlorogenic acid synthesis	48
eDNAFlow, an automated, reproducible and scalable workflow for analysis of environmental DNA sequences exploiting Nextflow and Singularity	47
LEA 3: Factor models in population genetics and ecological genomics with R	46
Bioinformatic pipelines combining denoising and clustering tools allow for more comprehensive prokaryotic and eukaryotic metabarcoding	45
Benchmarking bioinformatic tools for fast and accurate eDNA metabarcoding species identification	45
Chromosome‐level genome assembly for the largemouth bass Micropterus salmoides provides insights into adaptation to fresh and brackish water	44
DiversityScanner: Robotic handling of small invertebrates with machine learning methods	44

The changing face of genome assemblies: Guidance on achieving high‐quality reference genomes	44
High‐quality chromosome‐level genomes of two tilapia species reveal their evolution of repeat sequences and sex chromosomes	44
Successful application of ancient DNA extraction and library construction protocols to museum wet collection specimens	43
RADSex: A computational workflow to study sex determination using restriction site‐associated DNA sequencing data	43
SambaR: An R package for fast, easy and reproducible population‐genetic analyses of biallelic SNP data sets	42
Automatic inference of demographic parameters using generative adversarial networks	41
Testing genome skimming for species discrimination in the large and taxonomically difficult genus Rhododendron	40
Apolygus lucorum genome provides insights into omnivorousness and mesophyll feeding	39
The influence of intraspecific sequence variation during DNA metabarcoding: A case study of eleven fungal species	39
Navigating the seven challenges of taxonomic reference databases in metabarcoding analyses	38
f‐Statistics estimation and admixture graph construction with Pool‐Seq or allele count data using the R package poolfstat	38
DILS: Demographic inferences with linked selection by using ABC	38
The elephant grass (Cenchrus purpureus) genome provides insights into anthocyanidin accumulation and fast growth	38