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wbaopaul
/
scATAC-pro
A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
MIT License
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seurat_obj.rds not found while running downstream analysis
#68
khushi0810
opened
3 months ago
5
UMAP is not available in report
#67
Puriney
opened
11 months ago
5
Clustering is missing in all the wrappers
#66
Puriney
closed
11 months ago
0
Integration Step Fails
#65
aseyedia
closed
1 month ago
13
`downstream_analysis/MACS2/FILTER/seurat_obj.rds` not found
#64
aseyedia
closed
1 year ago
5
Error in mapping with bwa
#63
edfajardo
closed
11 months ago
5
single-end bam has zero 0x1 lines
#62
Puriney
closed
1 year ago
3
Cannot pull the singularity
#61
Puriney
closed
1 year ago
5
Bowtie2 seemed not installed in the singularity
#60
Puriney
closed
1 year ago
5
shifting ATAC-seq reads
#59
haibol2016
closed
11 months ago
1
how to run a scATAC-pro analysis with multiple biological replicates
#58
haibol2016
closed
1 year ago
8
No mapping results
#57
Larrycpan
closed
1 year ago
1
Annotations for different genomes
#56
Gunjan-Dixit
closed
1 year ago
1
Fatal error when running scATAC-pro 1.5
#55
aseyedia
closed
2 years ago
2
demultiplexing taking way too much time!
#54
AnjaliC4
closed
1 year ago
1
Program not recognizing parameters
#53
ZhiyunGong
closed
1 year ago
2
Single-end reads
#52
max3rd
closed
2 years ago
8
Enable PE/SE choice in call_peak.sh
#51
Puriney
closed
2 years ago
1
Question: why MACS2 is forced to run SE mapping?
#50
Puriney
closed
2 years ago
1
Peak calling on Tn5 shifted fragment files
#49
AnjaliC4
closed
2 years ago
3
installation error: value too great for base (error token is "10#line")
#48
leonvgurp
closed
2 years ago
2
Issue with executable file not found in $PATH
#47
gaelcge
closed
2 years ago
4
Error with running process and get bam for cell
#46
FEIFEIEIAr
closed
2 years ago
6
cell calling
#45
AnjaliC4
closed
2 years ago
10
Input fastqs not from 10x Genomics
#44
sebboegel
closed
3 years ago
11
filtered atac.fragments.txt
#43
AnjaliC4
closed
3 years ago
1
working with Integrated data
#42
AnjaliC4
closed
2 years ago
3
Reconstruct peak/cell matrix
#41
cadyyuheng
closed
3 years ago
9
Strange result
#40
Ping-lin14
closed
3 years ago
7
install issue
#39
cadyyuheng
closed
3 years ago
5
scATAC-pro tanlabcode sync
#38
tanlabcode
closed
3 years ago
0
Error: assignment of an object of class “numeric” is not valid for @‘Dim’ in an object of class “dgTMatrix”; is(value, "integer") is not TRUE
#37
philyang07
closed
3 years ago
2
Error during preprocessing (file already exists??)
#36
philyang07
closed
3 years ago
2
Is Perl required for the mapping function?
#35
philyang07
closed
3 years ago
1
Error 137
#34
Ping-lin14
closed
3 years ago
5
The installation failed
#33
Ping-lin14
closed
3 years ago
2
barcode name in sam tag
#32
AnjaliC4
closed
3 years ago
6
Differential accessibility between cases and controls
#31
AnjaliC4
closed
3 years ago
4
KeyError: 'gene_regions' issue.
#30
RoydenClark
closed
3 years ago
2
Error in fread(region.file, select = 1:3, header = F)
#29
YOU-k
closed
3 years ago
4
read configuration error in singularity image
#28
breannesparta
closed
3 years ago
6
Can not run the “MACS2” to do “call_peak”, and also can not run the “clustering” with our 10xgenomics “matrix data”
#27
hcluo2012
closed
3 years ago
2
Peak calling error
#26
sylestiel
closed
3 years ago
13
Mapping error
#25
sylestiel
closed
3 years ago
7
Motif analysis error and Seurat metadata
#24
AnjaliC4
closed
3 years ago
5
Downstream analysis
#23
sidrahmaryam
closed
3 years ago
7
Motif analysis in downstream
#22
sidrahmaryam
closed
3 years ago
6
nproc: command not found make[1]: *** [process] Error 127
#21
sylestiel
closed
3 years ago
3
demplx_fastq run error
#20
sylestiel
closed
3 years ago
14
Mapping step error
#19
sidrahmaryam
closed
3 years ago
3
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