GreenleafLab ArchR issues

GreenleafLab / ArchR

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

MIT License

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issues

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No such index during `test_4_workflow` with v1.0.3 Conda builds

#2234 mfansler opened 1 week ago
2
Error while creating arrow files with no specific (informative) error message

#2232 drowsygoat opened 1 week ago
4
Issues with ArchR calling MACS2 from WSL in Windows Environment

#2231 joeyQX opened 2 weeks ago
3
Error runing DoubletScores

#2229 eblchen closed 5 days ago
4
GeneAnnotation & Cis-BP references need to be updated

#2228 dannyconrad opened 3 weeks ago
1
Troubles in the tutorial with rank plots labels

#2227 alekseybelikov opened 4 weeks ago
1
Troubles in the tutorial with plotEnrichHeatmap followed by ComplexHeatmap::draw

#2226 alekseybelikov opened 4 weeks ago
1
Error in tutorial trajectory analysis

#2225 alekseybelikov opened 4 weeks ago
2
AddDoubletScore - TileMatrix/chr5/rowSums does not exist

#2224 shamer3 opened 1 month ago
1
problem in creating Arrow Files from Bam file

#2223 zara03 opened 1 month ago
1
Peak marker heatmap not sorted

#2222 alekseybelikov opened 1 month ago
1
Can't install the ArchR on MacOS 15.0.1

#2221 penghy27 opened 1 month ago
7
Update release 1.0.2 to reflect Jeff's bug fixes

#2220 immanuelazn closed 1 month ago
0
`addGeneExpressionMatrix` Error: invalid subscript

#2219 danli349 opened 1 month ago
1
Problem with addMonocleTrajectory( ArchRProj = NULL, name = "Trajectory", useGroups = NULL, groupBy = "Clusters", monocleCDS = NULL, force = FALSE )

#2217 A-legac45 opened 1 month ago
1
plotMarkerHeatmap: nLabel = 0 will result in an error

#2216 huyulan-funan opened 1 month ago
1
Suggestion in .createGroupBW

#2214 lldelisle opened 1 month ago
1
`addGeneIntegrationMatrix` Error in slot(object = object, name = "features")[[layer]] <- features: more elements supplied than there are to replace Traceback:

#2212 danli349 opened 1 month ago
6
`createArrowFiles` can't generate "QualityControl" plots

#2211 danli349 opened 1 month ago
2
Error in g$grobs[[legend]]: no such index at level 2

#2210 danli349 opened 1 month ago
3
simpleError in validObject(.Object): invalid class “DimReduc” object: dimensions for ‘cell.embeddings’ must be in order

#2209 danli349 opened 1 month ago
3
Problem How to convert archr project into seurat

#2207 A-legac45 opened 1 month ago
1
can't install ArchR on my mac Sonoma 14.6.1

#2206 yeroslaviz opened 2 months ago
1
Why hasn't ArchR been updated?

#2205 superSXB opened 2 months ago
1
peakAnnoEnrichment() Error

#2200 eblchen opened 3 months ago
2
SOLUTION: addGeneExpressionMatrix / import10xFeatureMatrix issue

#2199 juliabelk opened 3 months ago
1
Not All Seqnames Identical!

#2198 Aya-Balbaa-72 opened 3 months ago
2
getValidBarcodes() need to be modified to compatible with the output of Cell Ranger ATAC version higher than 2.0

#2197 cherrie-g opened 3 months ago
1
subset archr project

#2196 XiaoKaixuan12333 opened 3 months ago
1
Extrating out the getMarkerFeatures

#2194 mano2991 opened 3 months ago
1
addMonocleTrajectory is throwing an error - Error in .validInput(input = ArchRProj, name = "ArchRProj", valid = c("ArchRProj")) : could not find function ".validInput"

#2192 susrinivasan opened 3 months ago
1
getMatrixFromProject error: p[length(p)] cannot exceed 2^31-1

#2187 YiweiNiu opened 4 months ago
1
Installation

#2186 antoine4ucsd opened 4 months ago
1
Is there an easy way to directly generate a plotPeak2GeneHeatmap by plotting the filtered Peak2GeneLinks after using addPeak2GeneLinks?

#2185 nh-codem opened 4 months ago
1
for branch dev: add missing dependency declarations to methods and utils

#2184 waddella opened 4 months ago
0
add missing dependency declarations to methods and utils

#2183 waddella opened 4 months ago
0
error when subsetArchRProject

#2181 EddieLv opened 4 months ago
1
Update RNAIntegration.R

#2178 ZhangFuchang opened 4 months ago
1
Configuration failed, installtion of dev branch on no-network-machine

#2174 ZeroLi-Bio opened 5 months ago
1
PeakCallTiles-groupMat: Error in vapply(all_objects, nrow, integer(1L), USE.NAMES = FALSE) :

#2171 drowsygoat opened 5 months ago
1
cannot open connection

#2170 chsnys opened 5 months ago
1
The subset of markersPeaks cannot be processed for peakAnnoEnrichment.

#2169 HaixJiang opened 5 months ago
1
Error in g$grobs[[legend]]: no such index at level 2, when calling peaks

#2168 nansne opened 5 months ago
5
Long Computation Time for addClusters with Multiple Samples

#2167 limiao20 opened 6 months ago
3
speed up addClusters

#2166 limiao20 opened 6 months ago
1
Arrows are being created, but then unknown error, and arrows are deleted. No trace of the error in the log file.

#2164 drowsygoat opened 6 months ago
1
How can I fix an error in the creation of Arrow Files from my fragment files?

#2163 Axbxh opened 6 months ago
3
Error in (function (..., threads = 1, preschedule = FALSE) : Error Found Iteration 1 :

#2162 wenhai-cell87 opened 6 months ago
2
add version argument for writing gene expression to hdf5

#2161 szcf-weiya opened 6 months ago
0
add version argument for writing gene expression to hdf5

#2160 szcf-weiya closed 6 months ago
0