Transfer data — TransferData • Seurat
Transfer data — TransferData • Seurat - Satija Lab
Arguments · anchorset. An AnchorSet object generated by FindTransferAnchors · refdata. Data to transfer. · reference. Reference object from which to pull data ...
Mapping and annotating query datasets - Satija Lab
In data transfer, Seurat has an option (set by default) to project the PCA structure of a reference onto the query, instead of learning a joint ...
Filtering TransferData results based on prediction scores #6023
satijalab / seurat Public. Notifications You must ... > table([email protected]$prediction.score.max > 0.60) FALSE TRUE 1571 6867.
seurat/man/TransferData.Rd at master - GitHub
Generated by roxygen2: do not edit by hand % Please edit documentation in R/integration.R \name{TransferData} \alias{TransferData} \title{Transfer data} ...
Transfer data - Search R Project
TransferData {Seurat}, R Documentation. Transfer data. Description. Transfer categorical or continuous data across single-cell datasets. For transferring ...
TransferData: Transfer Labels - RDocumentation
Data to transfer. Should be either a vector where the names correspond to reference cells, or a matrix, where the column names correspond to the reference cells ...
Integration and Label Transfer - Satija Lab
Describes the standard Seurat v3 integration workflow, and applies it to integrate multiple datasets collected of human pancreatic islets ( ...
Seurat integration and label transfer questions : r/bioinformatics
... data to inform my own clustering efforts. When I did this using FindTransferAnchors and TransferData, I found that many clusters were lost ...
Multimodal reference mapping - Seurat - Satija Lab
We then transfer cell type labels and protein data from the reference to the query. Additionally, we project the query data onto the UMAP ...
Seurat: Integration and Label Transfer - NGS Analysis - NYU
After finding anchors, we use the TransferData function to classify the query cells based on reference data (a vector of reference cell type ...
seurat_transfer_data: Seurat Transfer Data - rdrr.io
This function allows you to classify cells in the list of datasets using the reference with the Seurat transferData() function.
How PCA projection and cell label transfer work in Seurat - Chatomics
Seurat's TransferData function takes into account the proximity of these non-MNN cells to the anchor cells and extrapolates the labels based on ...
Find transfer anchors — FindTransferAnchors • Seurat - Satija Lab
These anchors can later be used to transfer data from the reference to query object using the TransferData object. FindTransferAnchors( reference, query ...
How do I improve prediction accuracy with Seurat's ... - Reddit
I have very basic knowledge of machine learning and I want to use Seurat's FindTransferAnchors and TransferData to annotate my cells in a ...
Mapping and annotating query datasets • Seurat - Satija Lab
Cell type classification using an integrated reference · In data transfer, Seurat does not correct or modify the query expression data. · In data ...
Performing seurat-style data integration on data analysed using ...
I have done an analysis using scanpy and related sc-verse pipelines of a large number of separate data sets (8).
Comprehensive integration of single-cell data - PMC - PubMed Central
Feature imputation and label transfer are both implemented in the TransferData function in Seurat. Quantification and statistical analysis. Processing of ...
satijalab/seurat: vignettes/seurat5_integration_mapping.Rmd - rdrr.io
After finding anchors, we use the TransferData() function to classify the query cells based on reference data (a vector of reference cell type labels).
scATAC-seq data integration • Signac - Stuart Lab
We will integrate the two datasets together using the shared DNA accessibility assay, using tools available in the Seurat package.
Transfer data from sketch data to full data — TransferSketchLabels
This function transfers cell type labels from a sketched dataset to a full dataset based on the similarities in the lower dimensional space.