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242 results for “maximum likelihood”
Figure 3. Maximum likelihood phylogram constructed from 6755 in Integrative taxonomy at the nexus of population divergence and speciation in insular speckled rattlesnakes
Figure 3. Maximum likelihood phylogram constructed from 6755 nSNPs (left), with nodal support derived from summarising results of 100 bootstrap pseudoreplicates, and posterior assignment of each individual to clusters using STRUCTURE (right), based on 29,624 biallelic nSNPs. Colours correspond to populations or species discussed in the text.
Figure 6. The maximum-likelihood phylogram for cytochrome oxidase subunit I in A case of biodiversity overestimation in the Balkan Belgrandiella A. J. Wagner, 1927 (Caenogastropoda: Hydrobiidae): molecular divergence not paralleled by high morphological variation
Figure 6. The maximum-likelihood phylogram for cytochrome oxidase subunit I (COI) haplotypes. Bootstrap support and Bayesian posterior probabilities are shown. Normal font indicates reference haplotypes, bold font indicates haplotypes obtained in present study.
Figure 7. The maximum-likelihood phylogram for H3 in A case of biodiversity overestimation in the Balkan Belgrandiella A. J. Wagner, 1927 (Caenogastropoda: Hydrobiidae): molecular divergence not paralleled by high morphological variation
Figure 7. The maximum-likelihood phylogram for H3 haplotypes. Bootstrap support and Bayesian posterior probabilities are shown.
Figure 2. Maximum likelihood tree showing relationships among mitochondrial 16S in On the systematics, distribution and conservation status of Ichthyophis longicephalus Pillai, 1986 (Amphibia: Gymnophiona: Ichthyophiidae)
Figure 2. Maximum likelihood tree showing relationships among mitochondrial 16S ribosomal RNA haplotypes for Ichthyophis from Sri Lanka (I. glutinosus, I. orthoplicatus) and the Western Ghats of peninsular India (other species). Numbers at nodes indicate bootstrap support. Scale bar in substitutions per site. For I. longicephalus, voucher numbers are given; for other species GenBank accession numbers.
Figure 7. Maximum likelihood phylogram for combined 18S and cytochrome oxidase subunit I in An unusual, flagellum-bearing hydrobiid snail (Gastropoda: Rissooidea: Hydrobiidae) from Greece, with descriptions of a new genus and a new species
Figure 7. Maximum likelihood phylogram for combined 18S and cytochrome oxidase subunit I (COI) sequences, bootstrap support.
Figure 6. Maximum likelihood phylogram for cytochrome oxidase subunit I in An unusual, flagellum-bearing hydrobiid snail (Gastropoda: Rissooidea: Hydrobiidae) from Greece, with descriptions of a new genus and a new species
Figure 6. Maximum likelihood phylogram for cytochrome oxidase subunit I (COI) sequences, bootstrap support (1000 replicates).
FIGURE 111. Maximum Likelihood tree for 12 in <strong>Revision of the genus <em>Erythromelana</em> Townsend (Diptera: Tachinidae) and analysis of its phylogeny and diversification</strong>
FIGURE 111. Maximum Likelihood tree for 12 representatives of Blondeliini and 13 Erythromelana COI sequences. Numbers above branches indicate bootstrap percentages greater than 30.
Figure 5. Maximum likelihood trees constructed from mitochondrial cytochrome c oxidase subunit I in Cryptic diversity in coastal Australasia: a morphological and mitonuclear genetic analysis of habitat-forming sibling species
Figure 5. Maximum likelihood trees constructed from mitochondrial cytochrome c oxidase subunit I (left; log likelihood: -399.5730) and nuclear adenine nucleotide transporter intron (right; log likelihood: -12170.8682) sequences of Pyura praeputialis and Pyura doppelgangera sp. nov. Nodal support from 1000 bootstrap replications (> 75%) is indicated next to some branches. Circles indicate regions in which a particular allele was present. For simplicity, allele frequencies are not indicated.
FIGURE 3b. Maximum likelihood phylogram constructed from combined cyt b and 12S rRNA sequences for 20 in Specific limits and emerging diversity patterns in East African populations of laminate-toothed rats, genus Otomys (Muridae: Murinae: Otomyini): Revision of the Otomys typus complex 3024
FIGURE 3b. Maximum likelihood phylogram constructed from combined cyt b and 12S rRNA sequences for 20 Otomys specimens, one representative of Parotomys brantsii and four murine outgroups under the best-fit GTR+I+G model. Support indices for each node (1 – 23) are given beside the phylogram (BPP/ MLbs/ UwPbs/ 6PPbs/ NJpbs/ Njcbs). For both phylogenies (Figure 3a and 3b), the relative branch thickness indicates significant nodal support from the phylogenetic reconstruction methods employed herein (four to six methods—thick lines; two methods—intermediate lines). Dashed lines show unsupported relationships; Abbreviations and symbols: NS - BPP <0.95; "-" indicates that the node was not present in the relevant analysis, or percentage bootstrap support below 50%.
Figure 4. Maximum-likelihood tree reconstructed from a 4507 in Old views and new insights: taxonomic revision of the Bukovina blind mole rat, Spalax graecus (Rodentia: Spalacinae)
Figure 4. Maximum-likelihood tree reconstructed from a 4507-bp alignment of six mitochondrial sequencesof Spalax species [cytochrome b, NADH1, 12S rRNA, 16S rRNA, tRNA-Leu (UUR), tRNA-Val]. Acomys cahirinus and Nannospalax judaei were used as out-groups. The percentage of trees in which the associated taxa clustered together (after 10 000 replications) is shown next to the branches. The bar represents the number of substitutions per site.
Figure 3. Maximum likelihood topologies. A, cytochrome oxidase 1 fragments. B, internal transcribed spacer fragment. C, combined data set. Bootstrap supports over 75 in Integrative taxonomy of Parasabella and Sabellomma (Sabellidae: Annelida) from Australia: description of new species, indication of cryptic diversity, and translocation of some species out of their natural distribution range
Figure 3. Maximum likelihood topologies. A, cytochrome oxidase 1 fragments. B, internal transcribed spacer fragment. C, combined data set. Bootstrap supports over 75% shown on nodes. Scale bar, average of nucleotide substitutions per site.
Fig. 4. Fifty percent majority rule trees using Maximum Likelihood. A in Weak Genetic Differentiation among Populations of the Andean Ground Beetle Pelmatellus columbianus (Reiche, 1843) (Coleoptera: Carabidae)
Fig. 4. Fifty percent majority rule trees using Maximum Likelihood. A) COI, B) CAD. Bootstrap support shown above the branches.
FIGURE 6. Maximum likelihood tree from a in Morphology and phylogeny of a new species, Pseudocercospora haldinae (Mycosphaerellaceae) on Haldina cordifolia from India
FIGURE 6. Maximum likelihood tree from a concatenated dataset including ribosomal gene regions nuLSU and ITS. Numbers on the branches are percent bootstrap values for MEGA5-maximum likelihood (ML), MEGA5-maximum parsimony (MP) and Bayesian posterior probabilities (PP) indicated in order ML/MP/PP. New sequence data of P. haldinae is represented in red.
FIGURE 3. Phylogenetic tree inferred from maximum likelihood methods using 70 in Tigridiopalma longmenensis (Melastomataceae), a new species from Guangdong, China
FIGURE 3. Phylogenetic tree inferred from maximum likelihood methods using 70 protein-coding genes from the complete chloroplast genome sequences of Tigridiopalma longmenensis and other 15 species of Melastomataceae. The numbers beside the node indicate the bootstrap percentages (%) after 5000 replications of bootstrap sampling.
FIGURE. Maximum clade credibility tree of a post-burnin Bayesian analysis (100 million generations), based on nuclear (agt1, ETS, g3pdh, phyC, rpb2) and plastid (atpB–rbcL, matK, rps16, ycf1 pos. 1113-2103, ycf1 pos. 4492-5440) data. Above the branches, Bayesian posterior probabilities (PP) and maximum-likelihood bootstrap support (BS) are shown (PP/BS). The scale bar below the tree shows the branch length for 0.004 substitutions per nucleotide position. Capital letters at the branches are referred to in the tree description. in Re-evaluation of the Amazonian Hylaeaicum (Bromeliaceae: Bromelioideae) based on neglected morphological traits and molecular evidence
FIGURE. Maximum clade credibility tree of a post-burnin Bayesian analysis (100 million generations), based on nuclear (agt1, ETS, g3pdh, phyC, rpb2) and plastid (atpB–rbcL, matK, rps16, ycf1 pos. 1113-2103, ycf1 pos. 4492-5440) data. Above the branches, Bayesian posterior probabilities (PP) and maximum-likelihood bootstrap support (BS) are shown (PP/BS). The scale bar below the tree shows the branch length for 0.004 substitutions per nucleotide position. Capital letters at the branches are referred to in the tree description.
FIGURE 1. Maximum Likelihood phylogram obtained from the general nrITS and RPB2 in Inocybe cervenianensis (Agaricales, Inocybaceae), a new species in the I. flavoalbida clade from Italy
FIGURE 1. Maximum Likelihood phylogram obtained from the general nrITS and RPB2 sequence alignment of Inocybe spp. Mallocybe arthrocystis and Mallocybe leucoblema were used as outgroup taxa. Only MLB values ≥70% and BPP values ≥0.95 are given above clade branches. Newly sequenced collections are in bold. For each collection, the specific epithet (as present in GenBank), voucher, GenBank accession numbers of the RPB2/ITS sequences are reported. The /- notation indicates the sequence as missing for that collection.
Figure 3. Maximum-likelihood tree for 78 in Molecular phylogeny of the Forcipulatacea (Asteroidea: Echinodermata): systematics and biogeography
Figure 3. Maximum-likelihood tree for 78 forcipulate taxa and five velatidan taxa, based on 327 bp for the early-stage histone H3 gene plus the same rDNA sequences that were used in Figure 2. Bootstrap support values are based on 200 pseudoreplicates. Other details are as described in Figure 2.
Figure 1. Best selected tree from a maximum likelihood reconstruction for the cytochrome c oxidase subunit I in Integrating DNA and morphological taxonomy to describe diversity in poorly studied microscopic animals: new species of the genus Abrochtha Bryce, 1910 (Rotifera: Bdelloidea: Philodinavidae)
Figure 1. Best selected tree from a maximum likelihood reconstruction for the cytochrome c oxidase subunit I data set under the general time reversible model with gamma distribution, displaying all compatible groupings and with average branch lengths proportional to numbers of substitutions per site, indicated by the scale bar. Bootstrap support values above 80% are shown below each branch; posterior probabilities above 0.8 from 36 000 sampled trees from the Bayesian analysis are shown above each branch. Support values for within-species relationships are not shown. Filled circles indicate clades (and singlets) identified by the 4¥ rule; open diamonds indicate clades (and singlets) identified by the generalized mixed yule coalescent model. Names refer to the species and the clonal populations.
Figure 1. Maximum likelihood tree for the 386 in Evaluating hypotheses on the origin and diversification of the ringneck snake Diadophis punctatus (Colubridae: Dipsadinae)
Figure 1. Maximum likelihood tree for the 386 Diadophis punctatus samples and nine outgroup taxa. Nonparametric bootstrap proportions based on 1000 pseudoreplicates are listed above branches. Asterisk below represent nodes with maximum parsimony bootstrap values greater than 70. Symbols correspond to the geographical distribution of each lineage in Fig. 3. New mtDNA lineages are indicated with dark branches.
FIGURE 3. Nuclear 16S rDNA Maximum-likelihood tree for 25 in Caltsacoryne setouchiensis (Hydrozoa, Anthoathecata) a new genus and species of hydrozoan jellyfish from Japan
FIGURE 3. Nuclear 16S rDNA Maximum-likelihood tree for 25 anthoathcata taxa based on the General Time Reversible model: Scale bar indicates branch length in substitutions per site. Nodal support values are presented as the ML bootstrap value; only values>50% are shown.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.