diff --git a/DESCRIPTION b/DESCRIPTION index fc7a6d677..f34ee9f4a 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,6 +1,6 @@ Package: Seurat -Version: 4.0.5 -Date: 2021-10-04 +Version: 4.0.5.9000 +Date: 2021-10-19 Title: Tools for Single Cell Genomics Description: A toolkit for quality control, analysis, and exploration of single cell RNA sequencing data. 'Seurat' aims to enable users to identify and interpret sources of heterogeneity from single cell transcriptomic measurements, and to integrate diverse types of single cell data. See Satija R, Farrell J, Gennert D, et al (2015) , Macosko E, Basu A, Satija R, et al (2015) , Stuart T, Butler A, et al (2019) , and Hao, Hao, et al (2020) for more details. Authors@R: c( diff --git a/NEWS.md b/NEWS.md index 57e6f81a4..5ea47d791 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,3 +1,9 @@ +# Unreleased +## Added + +## Changes +- Set `do.center` to FALSE for `lsiproject` in `FindTransferAnchors` + # Seurat 4.0.5 (2020-10-04) ## Changes - Update documentation for `to.upper` parameter in `Load10X_Spatial()` ([#4576](https://github.com/satijalab/seurat/issues/4576)) @@ -15,6 +21,7 @@ - Add the `image.alpha` parameter to `SpatialDimPlot()` and `SpatialFeaturePlot()` - Add support for the correlation metric in `RunUMAP` ([#4972](https://github.com/satijalab/seurat/issues/4972)) + ## Changes - Warn and continue rather than erroring if not all features are available in `FindSpatiallyVariableFeatures()` ([#4611](https://github.com/satijalab/seurat/issues/4611)) - Bug fix for SCT-based integration in selecting proper reference model ([#4355](https://github.com/satijalab/seurat/issues/4355)) diff --git a/R/integration.R b/R/integration.R index 81c34006b..62150ed1b 100644 --- a/R/integration.R +++ b/R/integration.R @@ -1041,7 +1041,7 @@ FindTransferAnchors <- function( reduction = query[[reference.reduction]], data = GetAssayData(object = reference, assay = reference.assay, slot = "data"), mode = "lsi", - do.center = TRUE, + do.center = FALSE, do.scale = FALSE, use.original.stats = FALSE, verbose = verbose @@ -1053,7 +1053,7 @@ FindTransferAnchors <- function( reduction = reference[[reference.reduction]], data = GetAssayData(object = query, assay = query.assay, slot = "data"), mode = "lsi", - do.center = TRUE, + do.center = FALSE, do.scale = FALSE, use.original.stats = FALSE, verbose = verbose