Regulatory agencies advise to use the most conservative approach to impute missing data. As a drawback, single imputation methods do not take into account imputation variability.Giulia ToniniPhD Menarini RicercheFlorence
The advent of low cost next generation sequencing has made it possible to sequence a large number of dairy and beef bulls which can be used as a reference for imputation of whole genome sequence data. The aim of this study was to investigate the accuracy and speed of imputation from a high...
For ATAC only, we used TF activity z scores (k-nn imputation with k = 20). For RNA + ATAC, we paired siblings and used combined features. Repeated Stratified k-fold cross-validation (n_splits = 5, n_repeats = 5) was used for analysis, resulting in 25 accuracy/...
epithelial cells possess a low steady-state turnover but can respond to lung injury with proliferation and differentiation to replace damaged cells2. Understanding the process of lung regeneration at the cellular and molecular level, including the identification of progenitor cells, is a prerequisite...
Another strategy of handling the dropout/false zeros (attributed to inefficient sample preparation and sequencing protocol) is through suitable data imputation tools (e.g., scImpute and DrImpute, etc.) [82]. Furthermore, lower transcriptional captures in single-cells also contribute to dropout ...
CIDR: Ultrafast and accurate clustering through imputation for single-cell RNA-seq data. Genome Biol. 2017, 18, 59. [Google Scholar] [CrossRef] [Green Version] Senabouth, A.; Lukowski, S.W.; Hernandez, J.A.; Andersen, S.B.; Mei, X.; Nguyen, Q.H.; Powell, J.E. ascend: R ...
TotalVI deals with modelisation of the background noise of protein measurements, harmonization of multiple CITE-seq experiments and imputation of missing proteins. A Joint Model of RNA Expression and Surface Protein Abundance in Single Cells Rare cell detection FiRE - [python, R, C++] - Finder ...
We used linear data imputation to impute missing values. The number of samples for each activity at each position after pre-processing is shown in Table 5, Table 5 Number of samples for each activity class at each position after pre-processing Full size table...
Platelet counts were considered as nonresponse if they were missing after imputation. The proportion of patients who underwent splenectomy during the study was summarized. The exposure-adjusted incidence rates and patient incidence rates of AEs were summarized by system organ class and by preferred term...
“imputation” step to infer the true expression level of zero values in the input matrix. We choose the scImpute package [48] since it is the fastest among the imputation methods we have tested [48,49]. It takes about 1 minute on K-dataset using four cores of an Intel Xeon CPU E5-...