satijalab/seurat-object issues and pull requests

#226 - Fix broken links in pkgdown website

Pull Request - State: open - Opened by mojaveazure 12 days ago

#225 - Broken links on satijalab.org reference pages

Issue - State: open - Opened by pormr 12 days ago

#224 - add calcN parameter to CreateSeuratObject

Pull Request - State: open - Opened by mhkowalski 16 days ago - 1 comment

#223 - The seuratobject version matches the seurat version

Issue - State: open - Opened by PanSX-Dr about 1 month ago

#222 - Execution Speed of LayerData & co.

Issue - State: open - Opened by vertesy about 2 months ago

#221 - Issue with SCTransform

Issue - State: open - Opened by AnupaSP about 2 months ago - 1 comment

#220 - Elaborate on using 'tissue' vs 'plot' in the Crop function

Issue - State: open - Opened by Puriney 2 months ago

#219 - Allow feature/varialble name to be next to `)`

Pull Request - State: open - Opened by maxim-h 3 months ago - 1 comment

#218 - Error when merging objects

Issue - State: open - Opened by asta-a-t 3 months ago

#217 - Add basic CI checks

Pull Request - State: closed - Opened by dcollins15 4 months ago

#216 - Default branch change affecting `remotes::install_github`

Issue - State: open - Opened by dcollins15 4 months ago

#215 - Bug (and fix) in LogSeuratCommand when called by Seurat IntegrateData

Issue - State: open - Opened by jernest1 4 months ago

#214 - Fix/subset stdassay

Pull Request - State: closed - Opened by dcollins15 5 months ago - 1 comment

#213 - Return variable features directly if you have set them yourself

Pull Request - State: open - Opened by Gesmira 5 months ago

#212 - fix typos

Pull Request - State: closed - Opened by spaette 5 months ago - 3 comments

#211 - typos

Issue - State: closed - Opened by spaette 5 months ago

#210 - Fix md.features and data.features comparison

Pull Request - State: open - Opened by neanderthalensis 6 months ago

#209 - faster logmap labels

Pull Request - State: open - Opened by mihem 6 months ago - 2 comments

#208 - `subset(features = ...)` yields `Error in .subscript.2ary(x, i, j, drop = TRUE) : subscript out of bounds` after SCTransform

Issue - State: open - Opened by mschilli87 6 months ago - 13 comments

#207 - Move on-disk layers path-by-path rather than layer-by-layer

Pull Request - State: open - Opened by mojaveazure 6 months ago
Labels: enhancement

#206 - Error converting Assay5 to Assay

Issue - State: closed - Opened by alexvpickering 6 months ago - 11 comments

#205 - Release/5.0.2

Pull Request - State: closed - Opened by dcollins15 6 months ago - 4 comments

#204 - Fix/image subset

Pull Request - State: closed - Opened by dcollins15 7 months ago

#203 - Add `DefaultDimReduc<-`?

Issue - State: open - Opened by samuel-marsh 7 months ago

#202 - Make CellsByIdentities into S3 generic

Pull Request - State: open - Opened by samuel-marsh 7 months ago

#201 - Unexpected values returned by FetchData() / unsafe programming / change help

Issue - State: open - Opened by vertesy 7 months ago - 2 comments

#200 - Subsetting feature-level metadata fix

Pull Request - State: closed - Opened by Gesmira 7 months ago

#199 - Use `packageVersion("SeuratObject")` in `UpdateSeuratObject()`

Pull Request - State: closed - Opened by mojaveazure 7 months ago

#198 - SaveSeuratRds(): Is there a way to alter directory address of 'on-disk' matrices in Seurat object

Issue - State: open - Opened by Dazcam 7 months ago - 3 comments

#197 - Merge multiple v5 objects into one without splitting layers for counts

Issue - State: closed - Opened by aditisk 8 months ago - 1 comment

#196 - Issue with SeuratObject version leads to different numbers of observation from FindAllMarkers

Issue - State: open - Opened by eunksung 8 months ago

#195 - Error when subsetting a joint Seuratobject

Issue - State: open - Opened by moutazhelal 8 months ago

#194 - Bug fix in `PolyVtx()`

Pull Request - State: closed - Opened by mojaveazure 8 months ago

#193 - UpdateSeuratObject() does not create the new Layer-structure of Seurat v5+

Issue - State: closed - Opened by vertesy 8 months ago - 7 comments

#192 - Cleanup initialize definition for FOV

Pull Request - State: closed - Opened by dcollins15 8 months ago - 1 comment

#191 - Inconsistent behavior around single-cell objects

Issue - State: open - Opened by bbimber 8 months ago

#190 - Allow Radius to accept params

Pull Request - State: closed - Opened by dcollins15 8 months ago

#189 - Add warning if layer is absent from assay

Pull Request - State: closed - Opened by maxim-h 8 months ago

#188 - Change how `pbmc_small` is stored and generated

Pull Request - State: open - Opened by mojaveazure 8 months ago - 2 comments

#187 - Update seurat.R

Pull Request - State: open - Opened by mauriziopaul 9 months ago

#186 - Output of CellsByIdentities when an ident level is NA

Issue - State: open - Opened by yerahko 9 months ago

#185 - cannot install package

Issue - State: closed - Opened by Flu09 9 months ago

#184 - RenameCell error when replacing cell-names

Issue - State: open - Opened by swvanderlaan 9 months ago - 5 comments

#183 - Function not found error

Issue - State: open - Opened by Rahul1711arora 10 months ago

#182 - Fixes error in UpdateSeuratObject due to missing global slot.

Pull Request - State: closed - Opened by ddiez 10 months ago - 1 comment

#181 - A warning for counts matrix and metadata with differnet cell names

Issue - State: open - Opened by moi-taiga 10 months ago

#180 - Updates to keys

Pull Request - State: closed - Opened by mojaveazure 10 months ago - 3 comments

#179 - Velocyto- Seurat - invalid class “LogMap” object: Duplicate rownames not allowed

Issue - State: open - Opened by Ruba-Mahmoud 10 months ago - 2 comments

#178 - Fix reexport of `%||%`

Pull Request - State: closed - Opened by mojaveazure 10 months ago

#177 - Warning with `%||% reexport from rlang

Issue - State: closed - Opened by lionel- 10 months ago - 2 comments

#176 - Adjust imports and reexports from `Matrix`

Pull Request - State: closed - Opened by mojaveazure 11 months ago

#175 - SeuratObject::merge - collapse option mentioned in documentation but not yet implemented

Issue - State: open - Opened by adam-cornwell 11 months ago - 4 comments

#173 - Different features in new layer data than already exists for counts

Issue - State: open - Opened by vertesy 11 months ago - 1 comment

#167 - readRDS(object) requires UpdateSeuratObject(object) - results in Error in [[<-: ! Cannot add new cells with [[<-

Issue - State: open - Opened by MGjorgoska about 1 year ago - 4 comments

#165 - .GetSeuratCompat error while using SCTransform with v2 regularization

Issue - State: closed - Opened by ishwarvh about 1 year ago - 9 comments