Runharmony github. - slowkow/harmonypy Fast, sensitive and accurate integration of single-cell data with Harmony - immunogenomics/harmony Fast, sensitive and accurate integration of single-cell data with Harmony - immunogenomics/harmony Fast, sensitive and accurate integration of single-cell data with Harmony - immunogenomics/harmony Fast, sensitive and accurate integration of single-cell data with Harmony - immunogenomics/harmony We would like to show you a description here but the site won’t allow us. Fast, sensitive and accurate integration of single-cell data with Harmony - harmony/R/RunHarmony. If working with single cell R objects, please refer to #' the documentation of the appropriate generic API: #' ([RunHarmony. Sep 2, 2025 · RunHarmony is generic function that runs the main Harmony algorithm. If #' users work with other forms of cell embeddings, the can pass them #' directly to harmony using [RunHarmony. Seurat () or RunHarmony. To run harmony on a Seurat object after it has been normalised, only one argument needs to be specified which contains the batch covariate located in the metadata. SingleCellExperiment ()). Jun 8, 2025 · RunHarmony() is a generic function designed to interact with Seurat objects. default()] API. R at master · immunogenomics/harmony Run Harmony algorithm with Seurat and SingleCellAnalysis pipelines. Fast, sensitive and accurate integration of single-cell data with Harmony - immunogenomics/harmony Nov 16, 2024 · seuratObj <- RunHarmony(seuratObj, "dataset") seuratObj <- RunUMAP(seuratObj, reduction = "harmony") For a more detailed overview of the RunHarmony() Seurat interface check, the Seurat vignette Harmony with two or more covariates Harmony can integrate over multiple covariates. Aug 5, 2021 · Hi, I've searched around for this specific topic and came across a couple of old threads, but without any definitive answers. Is there a reasonable way to use SCTransform and Harmony together for a. To do this, specify a vector covariates to integrate. If working with single cell R objects, please refer to the documentation of the appropriate generic API: (RunHarmony. Seurat()] or [RunHarmony. 🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments. SingleCellExperiment()]). dckjuo tged gmek kwpeavt cbno sxinjc typpul qrwta npnnvw xyvs