Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / mojaveazure/seurat-object issues and pull requests
#172 - Recent changes to **Matrix** break installed SeuratObject
Issue -
State: closed - Opened by hpages 11 months ago
- 4 comments
#171 - Two fixes to no longer use deprecated routines
Pull Request -
State: closed - Opened by mojaveazure 11 months ago
#170 - Release/5.0.1
Pull Request -
State: open - Opened by mojaveazure 11 months ago
#169 - Adjust relocation of on-disk layers
Pull Request -
State: closed - Opened by mojaveazure 11 months ago
#168 - Assay5 cannot use pattern argument in the PercentageFeatureSet() function
Issue -
State: closed - Opened by jackaloppy 11 months ago
#167 - readRDS(object) requires UpdateSeuratObject(object) - results in Error in [[<-: ! Cannot add new cells with [[<-
Issue -
State: open - Opened by MGjorgoska 11 months ago
- 3 comments
#166 - Matrix 1.6.2 issue? invalid class "Graph" object: superclass "mMatrix" not defined in the environment of the object's class
Issue -
State: closed - Opened by bbimber 11 months ago
- 7 comments
#165 - .GetSeuratCompat error while using SCTransform with v2 regularization
Issue -
State: closed - Opened by ishwarvh 11 months ago
#164 - Bump Matrix version
Pull Request -
State: closed - Opened by mojaveazure 11 months ago
#163 - Update class imports from Matrix
Pull Request -
State: closed - Opened by mojaveazure 11 months ago
#162 - LogMap error in R-devel with Matrix 1.6-2
Issue -
State: closed - Opened by mvfki 11 months ago
- 3 comments
#161 - Create Seurat Object from matrix and two text files
Issue -
State: open - Opened by sky5198 11 months ago
#160 - Update use of `GetAssayData()`
Pull Request -
State: closed - Opened by mojaveazure 11 months ago
#159 - Release 5.0.0
Pull Request -
State: closed - Opened by mojaveazure 12 months ago
#158 - Move SeuratObject v5 to `develop`
Pull Request -
State: closed - Opened by mojaveazure 12 months ago
#157 - AddMetaData with data.frame as `metadata` fills NAs instead of data
Issue -
State: open - Opened by jonasfreimuth 12 months ago
#156 - Remove restrictions on which layers get merged in v5 assays
Pull Request -
State: closed - Opened by mojaveazure 12 months ago
#155 - Add compatibility mode for Seurat v4
Pull Request -
State: closed - Opened by mojaveazure 12 months ago
#154 - Add BPCells support for `SaveSeuratRds()` and `LoadSeuratRds()`
Pull Request -
State: closed - Opened by mojaveazure 12 months ago
#153 - Fix LogMap subsetting not preserving object order
Pull Request -
State: closed - Opened by mojaveazure 12 months ago
#152 - Crop not working due to sp over() deprecation
Pull Request -
State: closed - Opened by zskylarli 12 months ago
#151 - Update bracket behavior for assays
Pull Request -
State: closed - Opened by mojaveazure 12 months ago
#150 - BPCells issue in FindTransferAnchors + adist()
Pull Request -
State: closed - Opened by Gesmira 12 months ago
#149 - Seurat5 VariableFeatures, Layer defaults, split, whichcells
Pull Request -
State: closed - Opened by Gesmira 12 months ago
#148 - Merge v4 into v5 devel
Pull Request -
State: closed - Opened by mojaveazure 12 months ago
#147 - VariableFeatures updates
Pull Request -
State: closed - Opened by Gesmira 12 months ago
#146 - Provide unified deprecation function
Pull Request -
State: closed - Opened by mojaveazure 12 months ago
#145 - Please specify Matrix version with equal separation signs
Issue -
State: closed - Opened by tillea 12 months ago
- 5 comments
#144 - Gm setlayerdefaults
Pull Request -
State: closed - Opened by Gesmira 12 months ago
#143 - Gm var features
Pull Request -
State: closed - Opened by Gesmira 12 months ago
#142 - split warnings
Pull Request -
State: closed - Opened by Gesmira 12 months ago
#141 - Which cells fix (new)
Pull Request -
State: closed - Opened by longmanz 12 months ago
- 1 comment
#140 - updated split warning
Pull Request -
State: closed - Opened by Gesmira 12 months ago
#139 - added_whichCells
Pull Request -
State: closed - Opened by longmanz 12 months ago
#138 - forcing dgcmatrix if not specific type
Pull Request -
State: closed - Opened by Gesmira 12 months ago
#137 - Error in parse(outFile)
Issue -
State: open - Opened by yanwuanxin 12 months ago
- 2 comments
#136 - Forcing coercion to dgCMatrix if not "dgCMatrix, IterableMatrix, or DelayedArray
Pull Request -
State: closed - Opened by Gesmira 12 months ago
#135 - improve WhichCells
Pull Request -
State: closed - Opened by longmanz almost 1 year ago
- 1 comment
#134 - Draft: Split.StdAssay
Pull Request -
State: closed - Opened by Gesmira almost 1 year ago
#133 - Draft: SetLayerDefaults
Pull Request -
State: closed - Opened by Gesmira almost 1 year ago
#132 - Draft: Fixing v5 VariableFeatures
Pull Request -
State: closed - Opened by Gesmira almost 1 year ago
#131 - Split.StdAssay
Pull Request -
State: closed - Opened by Gesmira about 1 year ago
#130 - no slot of name "images" for this object of class "Seurat"
Issue -
State: open - Opened by jzhou54 about 1 year ago
- 2 comments
#129 - subset.Seurat: Making downsample specific to default assay
Pull Request -
State: open - Opened by Gesmira about 1 year ago
#128 - Fixing v5 VariableFeatures
Pull Request -
State: closed - Opened by Gesmira about 1 year ago
#127 - Weird issue with doing operations when ncells = nfeatures
Issue -
State: open - Opened by saketkc about 1 year ago
#126 - Stop auto transposition in `.PrepLayerData2()`
Pull Request -
State: closed - Opened by mojaveazure about 1 year ago
#125 - Adding feature metadata to Seurat v5 Object using SeuratObject::AddMetaData does not work
Issue -
State: open - Opened by grantn5 about 1 year ago
#124 - Setting Layer Defaults
Pull Request -
State: closed - Opened by Gesmira about 1 year ago
#123 - Release 4.1.4
Pull Request -
State: closed - Opened by mojaveazure about 1 year ago
#122 - Add check for newer ABIs
Pull Request -
State: closed - Opened by mojaveazure about 1 year ago
#121 - Add `.BPMatrixMode`
Pull Request -
State: closed - Opened by mojaveazure about 1 year ago
#120 - Warnings and BPCells exported function
Pull Request -
State: closed - Opened by Gesmira about 1 year ago
#119 - change AddMetaData method for assay, allows people to add feature lev…
Pull Request -
State: closed - Opened by mhkowalski about 1 year ago
#118 - Remove `rgeos` from suggests and add `sf`
Pull Request -
State: closed - Opened by AustinHartman about 1 year ago
#117 - add error message if images slot is not present (old seurat objects)
Pull Request -
State: closed - Opened by mhkowalski about 1 year ago
#116 - Add checks for layer number and feature presence in `LayerData()`/`GetAssayData()`
Pull Request -
State: closed - Opened by yuhanH about 1 year ago
- 1 comment
#115 - Feat/layer names
Pull Request -
State: open - Opened by mhkowalski about 1 year ago
#114 - Update feature-level AddMetaData
Pull Request -
State: open - Opened by AustinHartman about 1 year ago
#113 - Seurat5 devel
Pull Request -
State: closed - Opened by yuhanH about 1 year ago
#112 - Feat/double bracket error msg
Pull Request -
State: closed - Opened by mhkowalski about 1 year ago
#111 - modify fetch data layer
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
- 1 comment
#110 - merge()
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
#109 - sf in DESCRIPTION suggets due to legacy packahe rgeos
Issue -
State: closed - Opened by ricrossi over 1 year ago
- 4 comments
#108 - Merge runs forever without error if `x` is inside a named vector
Issue -
State: open - Opened by edridgedsouza over 1 year ago
#107 - remove R>=4.1.0 anonymous function shorthand
Pull Request -
State: closed - Opened by AustinHartman over 1 year ago
#106 - Modifying saveRDS for BPCells + other v5 updates
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
#105 - Seurat5
Pull Request -
State: open - Opened by yuhanH over 1 year ago
#104 - Allow for filtering of BPCells matrices in CreateSeuratObject
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
#103 - Feat/cal n generic
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#102 - fix check layer name
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#101 - Feat/cal n generic
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#100 - Feat/v5assay create
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#99 - Feat/cal n generic
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#98 - Feat/cal n generic
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#97 - Feat/cal n generic
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#96 - naming layers
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
- 3 comments
#95 - Feat/cal n generic
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#94 - Feat/cal n generic
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#93 - Feat/cal n generic
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#92 - Use newer version of Matrix
Pull Request -
State: closed - Opened by mojaveazure over 1 year ago
#91 - Saving BPCells directories and .rds file in same directory
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
- 1 comment
#90 - how to provide X-Y coordinates for spatial assay using CreateSeuratObject
Issue -
State: closed - Opened by linpei26 over 1 year ago
- 3 comments
#89 - Fix missing median_umi slot in SCT assay
Pull Request -
State: closed - Opened by saketkc over 1 year ago
#88 - v5 --> v3 assays
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
#87 - naming of parameters in RenameAssays
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
#86 - fix layer in VariableFeatures
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#85 - new proposed way of dealing with variables and strings for assay name
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
#84 - allowing both variable names and assay name as input
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
#83 - Update key name during merge
Pull Request -
State: closed - Opened by AustinHartman over 1 year ago
#82 - Feat/assay v5
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
#81 - fix no cells in assay
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#80 - Bugfix to CellsByIdentities
Pull Request -
State: closed - Opened by bbimber over 1 year ago
- 1 comment
#79 - Fix/v5 vignettes
Pull Request -
State: closed - Opened by AustinHartman over 1 year ago
#78 - Feat/variable features v5
Pull Request -
State: closed - Opened by yuhanH over 1 year ago
#77 - Make layerdata return empty matrix instead of error
Pull Request -
State: closed - Opened by Gesmira over 1 year ago
#76 - Fix FetchData cell order
Pull Request -
State: closed - Opened by AustinHartman almost 2 years ago
#75 - calcN generic
Pull Request -
State: closed - Opened by yuhanH almost 2 years ago
#74 - FeaturePlot BPcells
Pull Request -
State: closed - Opened by yuhanH almost 2 years ago
#73 - fix seurat options docs
Pull Request -
State: closed - Opened by AustinHartman almost 2 years ago