To provide a brief characterization of the cells removed from the total dataset (56,206 cells), we plotted the retained cells (20,676 cells) in a tSNE that included all cells (Supplementary Fig. 1e–g). Instead of 19 clusters, we obtained 21 clusters, each containing both retained and ...
Logistic regression 58 s 3.7 s 15x Draw graph (FA2) 256 s 0.3 s 850x run_mlm (DoRothEA) 83 s 12 s 7x Run_wsum (PROGENy) 970 s (16 min) 26 s 37xTable 1. Server node benchmark for a dataset of 90,000 cells In addition to the previous benchmark results, running a sample rapi...
Dataset Link: http://research.libd.org/spatialLIBD/. Elosua-Bayes M, Nieto P, Mereu E, Gut I, Heyn H. SPOTlight: seeded NMF regression to deconvolute spatial transcriptomics spots with single-cell transcriptomes. Nucleic Acids Res. 2021;49(9):e50–e50. Article CAS PubMed PubMed Central ...
[New Benchmark Dataset and Baseline]Event Stream-based Visual Object Tracking: A High-Resolution Benchmark Dataset and A Novel Baseline, Xiao Wang (Anhui University) · Shiao Wang (None) · Chuanming Tang (University of Chinese Academy of Sciences) · Lin Zhu (Beijing Institute of Technology) ...
20 and all NB cells in our dataset; (2) performing scaling normalization within each dataset employing the function ‘multiBatchNorm’ in batchelor (v1.6.2)83, and combining the datasets; (3) modeling per-gene variance and selecting all highly variable genes using the functions ‘modelGeneVar...
Weighted nearest neighbor analysis on a CITE-seq dataset of cord blood mononuclear cells, related to Figure 1 (A, B) Independent analysis of transcriptome (A) and protein (B) modalities from a CITE-seq analysis of cord blood mononuclear cells. Panels A-D correspond to Figures 1A–1D, but ...
1a), we subsampled from the Tabula Muris dataset [34] to create three main settings including (i) varying the number of true cell types from 5 to 20 (increment by 1) while fixing the number of cells in each cell type as 200; (ii) varying the number of cells from 50 to 250 (...
Without additional configurations to prevent over-classification, any new cell type in the target data may be forced into one of the existing cell types in the reference dataset. However, a common strategy is to set a threshold on the prediction odds, classifying certain cells as unassigned. ...
Each completed dataset is then analysed using the statistical analysis of interest, and the M results are combined using Rubin’s rules (see [5]). Measuring inequality lies within the scope of numerous fields. For instance, refs. [9,10,11] analyse inequality in health, environmental and ...
A comparison of single-cell trajectory inference methods - Unsure which of the more than 70 trajectory inference methods to use for your single-cell dataset? We evaluated 45 methods based on four criteria: the accuracy of the trajectory, how scalable the method is, how stable its outputs are,...