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368 results for “Consensus”
FIGURE 2. Strict consensus tree from the unweighted analysis. The same topology was obtained from 12 in Phylogenetic relationships of the comb-footed spider subfamily Spintharinae (Araneae, Araneoidea, Theridiidae), with generic diagnoses and a key to the genera
FIGURE 2. Strict consensus tree from the unweighted analysis. The same topology was obtained from 12 (PAUP, branch collapsing rule 3) and two (TNT, branch collapsing rule 1) equally most parsimonious trees (spintharine synapomorphies with character numbers above and character states below).
FIGURE 3. Strict consensus trees. A in Ampharetidae (Annelida: Polychaeta) from Japan. Part II: Genera with elevated and modified notopodia
FIGURE 3. Strict consensus trees. A: Strict consensus tree of all four most parsimonious trees, B: Strict consensus tree of the most parsimonious trees 1 and 2. Numbers indicate bootstrap support of the nodes with 9999 bootstrap replications.
FIGURE 14. Strict consensus tree obtained from the 7 trees yielded under K in New species of Pseudosmittia Edwards, 1932 and new records of Allocladius Kieffer, 1913 (Diptera: Chironomidae, Orthocladiinae) from South America
FIGURE 14. Strict consensus tree obtained from the 7 trees yielded under K=5 (Fit= 63.62, CI= 0.17, RI= 0.56). Number above branches indicates absolute Bremer support and number below branches indicates relative Bremer support.
FIGURE 5. Maximum Parsimony majority rule consensus tree from 33 in Revision of the genus Caenota Mosely (Trichoptera: Calocidae), with descriptions of 2 new species and the larva of C. nemorosa Neboiss
FIGURE 5. Maximum Parsimony majority rule consensus tree from 33 morphological characters of 7 species of Caenota and 1 species of Tamasia. Values on the branches are bootstrap values calculated from 1000 bootstrap replications.
FIGURE 3. Bayesian majority-rule consensus tree inferred from 16S and H3 in Revision of the genus Pseudopomatias and its relatives (Gastropoda: Cyclophoroidea: Pupinidae)
FIGURE 3. Bayesian majority-rule consensus tree inferred from 16S and H3 sequences. Posterior probability percentage estimates are indicated above branches. The scale bar represents the estimated number of nucleotide substitutions per site. The tree was rooted with Pomacea insularum (not indicated).
FIGURE 8. Bayesian inference consensus using a in Revalidation of Triatoma bahiensis Sherlock & Serafim, 1967 (Hemiptera: Reduviidae) and phylogeny of the T. brasiliensis species complex
FIGURE 8. Bayesian inference consensus using a Markov chain Monte Carlo algorithm applied to mitochondrial sequences of Cyt b fragments of 510 bp. The values over the nodes refer to bootstrap value by maximum parsimony. T. dimidiata and T. infestans were used as outgroup. Accession code of GenBank in the text.
FIGURE 3. Bayesian consensus tree for Neoplecostomus species obtained from 5 million generations. Numbers after branches are posterior probabilities. Values below 0.95 in Neoplecostomus canastra, a new catfish (Teleostei: Siluriformes) species from upper Rio Paraná basin
FIGURE 3. Bayesian consensus tree for Neoplecostomus species obtained from 5 million generations. Numbers after branches are posterior probabilities. Values below 0.95 are not shown. Results from different methods of species delimitation are shown with bars colored at right side of the phylogeny. Pink bars represent morphospecies, yellow bars GMYC model and blue bars 2% genetic distance between clusters. The upper-left graphic is the Lineage-through-time plot representing the threshold time at -0.007195772 (yellow line).
Figure 5. Consensus tree obtained from a 640 in Taxonomy and molecular phylogeny of the Neotropical genus Atlantoscia (Oniscidea, Philosciidae): DNA barcoding and description of two new species
Figure 5. Consensus tree obtained from a 640-bp alignment of cytochrome c oxidase subunit I gene sequences of the Atlantoscia species by using Bayesian inference. Numbers at nodes represent posterior probabilities values (1 000 000 generations). Clades highlighted by grey shading in the tree correspond to nominal species of Atlantoscia. Letters (a–k) represent the different individuals of terrestrial isopods analysed.
Figure 4. Bootstrap consensus neigbor-joining tree deduced from the cytochrome c oxidase subunit I in A revision of the Monopis monachella species complex (Lepidoptera: Tineidae) from China
Figure 4. Bootstrap consensus neigbor-joining tree deduced from the cytochrome c oxidase subunit I gene sequences. Numbers indicate bootstrap proportions (%).
Figure 5. Bootstrap consensus minimum evolution tree deduced from the cytochrome c oxidase subunit I in A revision of the Monopis monachella species complex (Lepidoptera: Tineidae) from China
Figure 5. Bootstrap consensus minimum evolution tree deduced from the cytochrome c oxidase subunit I gene sequences. Numbers indicate bootstrap proportions (%).
Comparative analysis of metabolic models of microbial communities reconstructed from automated tools and consensus approaches
<p>Generated draft and consensus reconstructions for the manuscript "Comparative analysis of metabolic models of microbial communities reconstructed from automated tools and consensus approaches" (Hsieh, Tandon, Verbruggen, & Nikoloski).</p>
Phenotypically active ORF and CRISPR consensus profiles
This hosts the files on phenotypically active genes for JUMP, derived from https://zenodo.org/records/14025602 after filtering samples with no matches above a given threshold (see filenames for thresholds).
Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics: fastq & bam files - Sample S5_Rec
<p>You can find here the fastq and bam files related to the datasets used in the publication: </p> <p>In this particular upload, you can find the fastq (version1) and bam (version2) files of the two replicates of sample S5_Rec (A121573)</p> <p><strong>Valdeolivas, A., Amberg, B., Giroud, N. <em>et al.</em> Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics. <em>npj Precis. Onc.</em> 8, 10 (2024). https://doi.org/10.1038/s41698-023-00488-4</strong></p> <p> </p> <p> </p>
Figure 9. Consensus cladogram resulted from 12 minimum-length trees with 1287 in Systematic revision of Sarcosuchus hartti (Crocodyliformes) from the Recôncavo Basin (Early Cretaceous) of Bahia, north-eastern Brazil
Figure 9. Consensus cladogram resulted from 12 minimum-length trees with 1287 steps (CI: 0.327 and RI: 0.610). The numbered nodes are the following clades: 1, Neosuchia; 2, Susisuchidae; 3, Eusuchia; 4, Allodaposuchidae; 5, Crocodylia; 6, Coelognathosuchia; 7, Goniopholididae; 8, Tethysuchia; 9, Pholidosauridae; 10, Tethysuchoidea; 11, Dyrosauridae.
Figure 13. Strict consensus cladograms from the modified Young matrix analyses. A, results from the analysis using all 104 in Revision of the enigmatic crocodyliform Elosuchus felixi de Lapparent de Broin, 2002 from the Lower-Upper Cretaceous boundary of Niger: potential evidence for an early origin of the clade Dyrosauridae
Figure 13. Strict consensus cladograms from the modified Young matrix analyses. A, results from the analysis using all 104 operational taxonomic units (OTUs). B, subset of results from the analysis excluding Fortignathus felixi (de Lapparent de Broin, 2002) comb. nov., showing the only differences with the 104 OUT analyses (i.e. in the resolution of Dyrosauridae, Pholidosauridae and Crocodylia). Bootstrap values are shown above the relevant nodes. C, subset of results from the analysis excluding F. felixi comb. nov. and Pholidosaurus schaumbergensis von Meyer, 1841, showing the differences with the 104 OUT analysis alone (i.e. in the resolution of Dyrosauridae and Pholidosauridae). Abbreviations: CI, ensemble consistency index; RI, ensemble retention index; RC, rescaled consistency index; HI, ensemble homoplasy index.
FIGURE 1. Strict consensus tree obtained from 12 in Revised classification of the New World Cylapini (Heteroptera: Miridae: Cylapinae): taxonomic review of the genera Cylapinus, Cylapoides and Peltidocylapus and a morphology-based phylogenetic analysis of tribe Cylapini
FIGURE 1. Strict consensus tree obtained from 12 most parsimonious trees under equal weights. Bremer support values are indicated below branches.
C³ONTEXT: A Common Consensus on Convective OrgaNizaTion during the EUREC⁴A eXperimenT
<p>This dataset contains the manual cloud classifications of the EUREC4A field campaign time period as well as the post-processed data.</p> <p>The dataset is organised as following:</p> <ul> <li><strong>zooniverse_raw:</strong> Originial output data from the platform <a href="http://www.zooniverse.org">zooniverse.org</a> which has been used to create the classifications</li> <li><strong>processed_data:</strong> <ul> <li><strong>Level1: EUREC4A_ManualClassifications_l1.nc:</strong> Geographical and Cartesian coordinates are added to each label</li> <li> <p><strong>Level2: EUREC4A_ManualClassifications_l2.zarr</strong>: labels are converted to masks and combined for each classification</p> </li> <li> <p><strong>Level3: EUREC4A_ManualClassifications_l3_$WORKFLOW_$COMPOSITE.zarr</strong>: pixel-agreement among users/classifiers on each of the four meso-scale cloud patterns for daily composites and individual scenes.</p> </li> </ul> </li> <li> <p><strong>auxiliary_data:</strong></p> <ul> <li> <p><strong>EUREC4A_AuxiliaryData_NeuralNetworkClassifications.zip/GOES16_CH13_classifications_EUREC4A_30min.zarr:</strong> neural network classifications based on GOES-16 Advanced Baseline Imager (ABI) channel 13 (infrared) @ 30 minute intervals.</p> </li> <li> <p><strong>EUREC4A_AuxiliaryData_IorgSMetrics.zip/GOES16_IR_nc_Iorg_EUREC4A_10-20_-58--48.nc</strong>: Organisation index (Iorg) and mean cloud cluster size (S) derived from GOES-16 ABI infrared images of the domain 10-20N 58-48W.</p> </li> </ul> </li> </ul> <p>An example how to use the data can be found at <a href="https://github.com/observingClouds/EUREC4A_manualclassifications">github.com/observingClouds/EUREC4A_manualclassifications</a>.</p>
FIGURE 6. Strict consensus tree from the unweighted parsimony analysis that yielded 10,000 in Systematic revision of the family Kalliapseudidae (Crustacea: Tanaidacea)
FIGURE 6. Strict consensus tree from the unweighted parsimony analysis that yielded 10,000 (overflow) most parsimonious trees.
Supplemental files for: A consensus view of the proteome of the last universal common ancestor
<p>The availability of genomic and proteomic data from across the tree of life has made it possible to infer features of the genome and proteome of the last universal common ancestor of life (LUCA). A number of studies have done so, all using a unique set of methods and bioinformatics databases. Here, we compare predictions across eight such studies and measure both their agreement with one another and with the consensus predictions among them. We find that some LUCA genome studies show a strong agreement with the consensus predictions of the others, but that no individual study shares a high or even moderate degree of similarity with any other individual study. From these observations, we conclude that the consensus among studies provides a more accurate depiction of the proteome of the LUCA and its functional repertoire. The set of consensus LUCA protein family predictions between all of these studies portrays a LUCA genome that, at minimum, encoded functions related to protein synthesis, amino acid metabolism, nucleotide metabolism, and the use of common, nucleotide-derived organic cofactors.</p>
Amplicon_sorter: a tool for reference-free amplicon sorting based on sequence similarity and for building consensus sequences
<p>Oxford Nanopore Technologies (ONT) is a third-generation sequencing technology that is gaining popularity in ecological research for its portable and low-cost sequencing possibilities. Although the technology excels at long-read sequencing, it can also be applied to sequence amplicons. The downside of ONT is the low quality of the raw reads. Hence, generating a high-quality consensus sequence is still a challenge. We present Amplicon_sorter, a tool for reference-free sorting of ONT sequenced amplicons based on their similarity in sequence and length and for building solid consensus sequences.</p>
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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.