diff --git a/R/clustering.R b/R/clustering.R index 775a3233c..feec0c69f 100644 --- a/R/clustering.R +++ b/R/clustering.R @@ -207,7 +207,7 @@ FindClusters.Seurat <- function( FindNeighbors.default <- function( object, distance.matrix = FALSE, - k.param = 10, + k.param = 20, compute.SNN = TRUE, prune.SNN = 1/15, nn.eps = 0, @@ -286,7 +286,7 @@ FindNeighbors.default <- function( FindNeighbors.Assay <- function( object, features = NULL, - k.param = 10, + k.param = 20, compute.SNN = TRUE, prune.SNN = 1/15, nn.eps = 0, @@ -314,7 +314,7 @@ FindNeighbors.Assay <- function( #' FindNeighbors.dist <- function( object, - k.param = 10, + k.param = 20, compute.SNN = TRUE, prune.SNN = 1/15, nn.eps = 0, @@ -355,7 +355,7 @@ FindNeighbors.Seurat <- function( dims = 1:10, assay = NULL, features = NULL, - k.param = 30, + k.param = 20, compute.SNN = TRUE, prune.SNN = 1/15, nn.eps = 0, diff --git a/appveyor.yml b/appveyor.yml index c6933d2ff..9c400d215 100644 --- a/appveyor.yml +++ b/appveyor.yml @@ -17,6 +17,7 @@ environment: global: R_ARCH: x64 USE_RTOOLS: true + BIOC_USE_DEVEL: "FALSE" _R_CHECK_FORCE_SUGGESTS_: false PYTHON: "C:\\Python36-x64" RETICULATE_PYTHON: "C:\\Python36-x64" diff --git a/man/FindNeighbors.Rd b/man/FindNeighbors.Rd index cc0c5145a..968f018b3 100644 --- a/man/FindNeighbors.Rd +++ b/man/FindNeighbors.Rd @@ -11,19 +11,19 @@ FindNeighbors(object, ...) \method{FindNeighbors}{default}(object, distance.matrix = FALSE, - k.param = 10, compute.SNN = TRUE, prune.SNN = 1/15, nn.eps = 0, + k.param = 20, compute.SNN = TRUE, prune.SNN = 1/15, nn.eps = 0, verbose = TRUE, force.recalc = FALSE, ...) -\method{FindNeighbors}{Assay}(object, features = NULL, k.param = 10, +\method{FindNeighbors}{Assay}(object, features = NULL, k.param = 20, compute.SNN = TRUE, prune.SNN = 1/15, nn.eps = 0, verbose = TRUE, force.recalc = FALSE, ...) -\method{FindNeighbors}{dist}(object, k.param = 10, compute.SNN = TRUE, +\method{FindNeighbors}{dist}(object, k.param = 20, compute.SNN = TRUE, prune.SNN = 1/15, nn.eps = 0, verbose = TRUE, force.recalc = FALSE, ...) \method{FindNeighbors}{Seurat}(object, reduction = "pca", dims = 1:10, - assay = NULL, features = NULL, k.param = 30, compute.SNN = TRUE, + assay = NULL, features = NULL, k.param = 20, compute.SNN = TRUE, prune.SNN = 1/15, nn.eps = 0, verbose = TRUE, force.recalc = FALSE, do.plot = FALSE, graph.name = NULL, ...) }