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BANKSY unifies cell typing and tissue domain segmentation for …
Feb 27, 2024 · BANKSY labels spatially structured cell types and subtypes with high accuracy and is adept at distinguishing subtly different cell subtypes residing in distinct microenvironments.
prabhakarlab/Banksy: Spatial transcriptomic clustering
Jul 31, 2024 · Banksy is an R package that incorporates spatial information to cluster cells in a feature space (e.g. gene expression). To incorporate spatial information, BANKSY computes …
- License: file LICENSE
- Version: 0.99.13
- Package repository: View on GitHub
BANKSY unifies cell typing and tissue domain segmentation for …
BANKSY revealed unexpected niche-dependent cell states in the mouse brain and outperformed competing methods on domain segmentation and cell typing benchmarks. BANKSY can also …
BANKSY: scalable cell typing and domain segmentation for
May 15, 2024 · We demonstrated spatially aware batch correction by applying the existing batch correction tool Harmony directly to the embedding produced by BANKSY to integrate 12 …
Banksy is an R package that incorporates spatial information to cluster cells in a feature space (e.g. gene expression). To incorporate spatial information, BANKSY computes the mean …
highly versatile, with its utility extending beyond cell typing and domain segmentation. We demonstrated spatially aware batch cor-rection by applying the existing batch correction tool …
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Banksy is an R package that incorporates spatial information to cluster cells in a feature space (e.g. gene expression). To incorporate spatial information, BANKSY computes the mean …
Banksy - Bioconductor
Banksy is an R package that incorporates spatial information to cluster cells in a feature space (e.g. gene expression). To incorporate spatial information, BANKSY computes the mean …
prabhakarlab/Banksy: BANKSY: spatial clustering
BANKSY is a method for clustering spatial omics data by augmenting the features of each cell with both an average of the features of its spatial neighbors along with neighborhood feature gradients. By incorporating neighborhood information for …
satijalab/seurat-wrappers: docs/banksy.md - R Package …
Nov 23, 2024 · BANKSY is a method that incorporates neighborhood information for clustering spatial omics data. By doing so, BANKSY is able to improve cell-type assignment in noisy data
Banksy-package : The Banksy package - R Package Documentation
Jul 31, 2024 · Banksy is an R package that incorporates spatial information to cluster cells in a feature space (e.g. gene expression). To incorporate spatial information, BANKSY computes …
(PDF) BANKSY: A Spatial Omics Algorithm that Unifies Cell Type ...
Apr 15, 2022 · BANKSY’s spatial kernel-based feature augmentation strategy improves per-formance and scalability on both tasks when tested on FISH-based and sequencing-based …
BANKSY unifies cell typing and tissue domain segmentation for …
2 days ago · BANKSY can also be used for quality control of spatial transcriptomics data and for spatially aware batch effect correction. Importantly, it is substantially faster and more scalable …
seurat-wrappers/docs/banksy.Rmd at master - GitHub
With low values of lambda, BANKSY operates. in cell-typing mode, while high values of lambda find spatial domains. - `features`: specifies features for downstream analysis. This can be …
[PDF] BANKSY unifies cell typing and tissue domain …
Feb 27, 2024 · BANKSY provides an accurate, biologically motivated, scalable and versatile framework for analyzing spatially resolved omics data, and revealed unexpected niche …
satijalab/seurat-wrappers: docs/banksy.Rmd - R Package …
Nov 23, 2024 · Compute a spatially-aware embedding with PCA on the BANKSY matrix, and run Harmony on this embedding.
BANKSY: scalable cell typing and domain segmentation for
May 15, 2024 · BANKSY’s spatial feature augmentation strategy improved performance on both tasks when tested on diverse RNA (imaging, sequencing) and protein (imaging) datasets.
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