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2 results for “fine branch”
Data and code for the article "Advancing Fine Branch Biomass Estimation with LiDAR and Structural Models"
<p>This is the repository for the data and code to reproduce the article "Advancing Fine Branch Biomass Estimation with LiDAR and Structural Models".</p> <p>Summary:</p> <p><span><span>·</span></span><span><span><span> </span><em>Background and Aims</em></span></span></p> <p><span><span>Lidar is a promising tool for fast and accurate measurements of trees. There are several approaches to estimate aboveground woody biomass using lidar point clouds. One of the most widely used methods involves fitting geometric primitives (<em>e.g.</em> cylinders) to the point cloud, thereby reconstructing both the geometry and topology of the tree. However, current algorithms are not suited for accurate estimation of the volume of finer branches, because of the unreliable point dispersions from <em>e.g. </em>beam footprint compared to the structure diameter.</span></span></p> <p><span><span>·</span></span><span><span><span> </span><em>Methods</em></span></span></p> <p><span><span>We propose a new method that couples point cloud-based skeletonization and multi-linear statistical modelling based on structural data to make a model (structural model) that accurately estimates the aboveground woody biomass of trees from high-quality lidar point clouds, including finer branches. The structural model was tested at segment, axis, and branch level, and compared to a cylinder fitting algorithm and to the pipe model theory.</span></span></p> <p><span><span>·</span></span><span><span><span> </span><em>Key Results</em></span></span></p> <p><span><span>The model accurately predicted the biomass with 1.6% nRMSE at the segment scale from a k-fold cross-validation. It also gave satisfactory results when up-scaled to the branch level with a significantly lower error (13% nRMSE) and bias (-5%) compared to conventional cylinder fitting to the point cloud (nRMSE: 92%, bias: 82%), or using the pipe model theory (nRMSE: 31%, bias: -27%).</span></span></p> <p><span><span>The model was then applied to the whole-tree scale and showed that the sampled trees had more than 1.7km of structures on average and that 96% of that length was coming from the twigs (<em>i.e.</em> <5 cm diameter). Our results showed that neglecting twigs can lead to a significant underestimation of tree aboveground woody biomass (-21%).</span></span></p> <p><span><span>·</span></span><span><span><span> </span><em>Conclusions</em></span></span></p> <p><span><span>The structural model approach is an effective method that allows a more accurate estimation of the volumes of smaller branches from lidar point clouds. This method is versatile but requires manual measurements on branches for calibration. Nevertheless, once the model is calibrated, it can provide unbiased and large-scale estimations of tree structure volumes, making it an excellent choice for accurate 3D reconstruction of trees and estimating standing biomass.</span></span></p>
A transcriptome for the early-branching fern Botrychium lunaria enables fine-grained resolution of population structure
<p>File S1: Alignment of Botrychium CRY2cA sequences used to infer the genus-level phylogeny.</p> <p>File S2: Peptide sequences used to infer the orthogroups named according species names or identifiers (see Table S1).</p> <p>File S3: Alignments of the orthogroup sequences subset used to infer the phylogenomy.</p> <p>File S4: Output files from modeltest-ng named by orthogroup names.</p> <p>File S5: Output files from raxml-ng named by orthogroup names.</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.