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30 Open 1,225 Closed
30 Open 1,225 Closed
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Issues list

Error while creating ChromatinAssay: unable to find an inherited method for function ‘mcols’ for signature ‘x = "NULL"’ bug Something isn't working
#1890 opened Jan 22, 2025 by EmanueleRosatti
1
Can you expose CutMatrix and MultiRegionCutMatrix for everyone to use enhancement New feature or request
#1888 opened Jan 18, 2025 by ZhangFuchang
Issue with subsetting ATAC assay bug Something isn't working
#1883 opened Jan 10, 2025 by yloskove
1
Error when running Integrating scRNA-seq and scATAC-seq data vignette
#1878 opened Jan 3, 2025 by realmungmung
1
CoveragePlot error
#1872 opened Dec 23, 2024 by jmzhang1911
1
Issue with CoveragePlot: shows opposite trend from ViolinPlot for a specific peak
#1871 opened Dec 21, 2024 by Daliya-K
1
Unable to link peaks to genes bug Something isn't working
#1855 opened Nov 26, 2024 by zgb963
5
Unable to subset chromatinassay by features like in vignette "Analyzing PBMC scATAC-seq" when other assays are present bug Something isn't working
#1847 opened Nov 23, 2024 by jzw1999
1
Issues with adding motifs to multiome dataset: Error in loadFUN(x, seqname, ranges) : trying to load regions beyond the boundaries of non-circular sequence "chr1" bug Something isn't working
#1845 opened Nov 22, 2024 by ptk1601
AddMotifs ERROR: Error in h(simpleError(msg, call)) : error in evaluating the argument 'x' in selecting a method for function 'xvcopy': some ranges are out of bounds bug Something isn't working
#1815 opened Nov 13, 2024 by elegantmedstu
Suggestion on argument name "max.downsample" in CoveragePlot and related functions
#1791 opened Sep 29, 2024 by G3N0M3
Metagene plots enhancement New feature or request
#1787 opened Sep 25, 2024 by diego-rt
Following integration of multiple samples, SVD producing all NA cell embeddings bug Something isn't working
#1786 opened Sep 25, 2024 by gherrgo
1
Integrated scATAC data, dimension set: dims = 2:30 documentation Documentation help
#1783 opened Sep 18, 2024 by YuelinYao
RegionHeatmap order
#1745 opened Jul 10, 2024 by umutcakir
10X multiome subsetting cancer cell line with blacklist_ratio ~ 1 for both hg38_blacklist and hg38_blacklist_unified
#1741 opened Jul 9, 2024 by methornton
4
Options for ncol and keeping order of idents in RegionHeatmap enhancement New feature or request
#1729 opened Jun 21, 2024 by mossconfuse
Footprinting issue bug Something isn't working
#1689 opened Apr 23, 2024 by leecon30
1
Check for MACS2 before splitting file enhancement New feature or request
#1678 opened Apr 5, 2024 by AmelZulji
3
TSS enrichment with a region extension 2000bp
#1638 opened Feb 26, 2024 by Montsecb
4
BPcells doesn't work with chromatin Assay enhancement New feature or request
#1507 opened Oct 10, 2023 by LucaTucciarone
4
ReadMGATK does not work if using -eb option in mgatk bug Something isn't working
#1462 opened Jul 31, 2023 by msteph11
1
Changing Fragment object annotation style enhancement New feature or request
#1370 opened Apr 4, 2023 by daccachejoe
1
FeatureMatrix() should count cut sites? enhancement New feature or request
#1369 opened Apr 4, 2023 by nesetozel
2
Error adding gene names to the differentially accessible peaks enhancement New feature or request
#1337 opened Feb 14, 2023 by KshitijDeoghar
2
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