GreenleafLab / ArchR

ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)

GreenleafLab/ArchR Issues

How can I fix an error in the creation of Arrow Files from my fragment files?
Updated 25 days ago3
Unconstrained integration error - "more elements supplied than there are to replace"
Updated a month ago18
issue with integrating scRNAseq with ArchR using 'addGeneIntegrationMatrix( )
Updated a month ago3
Error in (function (..., threads = 1, preschedule = FALSE) : Error Found Iteration 1 :
Updated a month ago2
addGeneIntegrationMatrix "Error in slot(object = object, name = \"features\")[[layer]] <- features : more elements supplied than there are to replace"
Closed 7 months ago4
Error in g$grobs[[legend]]: no such index at level 2, when calling peaks
Updated a month ago3
Continuing through after error ggplot for Fragment Size Distribution
Updated a month ago6
GGplot Errors for Fragment Size Distribution and DoubletScores
Updated a month ago8
getMatrixFromProject error: p[length(p)] cannot exceed 2^31-1
Updated a month ago1
Error: invalid subscript in addGeneExpressionMatrix()
Updated a month ago1
Installation
Updated a month ago1
Error in plotTrajectoryHeatmap that set labelMarkers failed
Updated a month ago1
Is there an easy way to directly generate a plotPeak2GeneHeatmap by plotting the filtered Peak2GeneLinks after using addPeak2GeneLinks?
Updated a month ago1
error when subsetArchRProject
Updated 2 months ago1
peakAnnoEnrichment fxn gives error "CRsparse_colSums" not resolved from current namespace (Matrix)
Updated 2 months ago5
installing ArchR on conda
Updated 2 months ago2
Configuration failed, installtion of dev branch on no-network-machine
Updated 2 months ago1
PeakCallTiles-groupMat: Error in vapply(all_objects, nrow, integer(1L), USE.NAMES = FALSE) :
Updated 2 months ago1
cannot open connection
Updated 2 months ago1
Sudden Error in DoubletScoring; worked perfectly fine previously
Updated 2 months ago3
The subset of markersPeaks cannot be processed for peakAnnoEnrichment.
Updated 3 months ago1
Long Computation Time for addClusters with Multiple Samples
Updated 3 months ago1
speed up addClusters
Updated 3 months ago1
Arrows are being created, but then unknown error, and arrows are deleted. No trace of the error in the log file.
Updated 3 months ago1
ERROR Found in .fastTSSCounts for creating arrowfile
Updated 3 months ago6
ERROR:Found in .fastTSSCounts for/ERROR:ArrowFiles completed./ERROR:double free or corruption
Updated 3 months ago3
Creating ARROW files :ERROR Found in .fastTSSCounts for (Mock1 : 1 of 1)
Updated 4 months ago2
ERROR Found in .addGeneScoreMat TmpGS for PBMC
Updated 4 months ago1
Error in plotPDF()
Closed 4 months ago3
Easy bug fix for addClusters to support Leiden igraph implementation
Updated 4 months ago1
SummarizedExperiment Error with import10xFeatureMatrix function
Updated 4 months ago1
Error in plotFootprints(seFoot = seFoot, ArchRProj = projHeme, normMethod = "Subtract", : unused argument (useNames = TRUE)
Updated 4 months ago1
addGroupCoverages error
Closed 5 months ago2
Paired Multiome samples
Updated 5 months ago1
Error: addDoubletScores about ggplot2
Closed 6 months ago3
addGeneExpressionMatrix incorrectly calculates "Gex_MitoRatio"
Updated 5 months ago1
Error in subsetArchRProject
Updated 5 months ago1
Is scaleDims scaling along the wrong axis?
Updated 5 months ago4
addGroupCoverage kills the session
Updated 6 months ago1
getFootprints
Updated 6 months ago2
Different result in motif deviation score
Closed 7 months ago1
Error splitting archr project
Updated 7 months ago1
Error with addIterativeLSI
Updated 7 months ago1
Rstudio crashing with addGeneIntegrationMatrix() and addToArrow = TRUE when accessing GeneIntegrationMatrix from temp files
Updated 7 months ago1
addGeneIntegrationMatrix reductions parameter
Updated 7 months ago1
Unable to run getMarkerFeatures()
Updated 8 months ago1
Will the arrow files being subset running subsetArchRProject() with dropCells = TRUE?
Updated 8 months ago1
Error in h5read(x, paste0(useMatrix, "/Info/Units")) : Object 'GeneExpressionMatrix/Info/Units' does not exist in this HDF5 file
Updated 8 months ago1
Merging or Combining multiple ArchRProject Objects
Updated 8 months ago1
How to conduct footprint analysis for loci of a single gene across different celltypes
Updated 8 months ago1