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r3fang
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SnapATAC
Analysis Pipeline for Single Cell ATAC-seq
GNU General Public License v3.0
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runHarmony not working
#60
cschmidl
closed
5 years ago
0
HOMER and chromVAR
#59
cschmidl
opened
5 years ago
4
differcent barcodes between cellranger-atac and sanpATAC
#58
xinhuang420
opened
5 years ago
5
Promoter Ratio Bug?
#57
AlexChitsazan
opened
5 years ago
3
Saving snap object
#56
mihbasad
opened
5 years ago
4
chromVar example missing?
#55
Austin-s-h
opened
5 years ago
0
runJDA produces nothing?
#54
cnk113
closed
5 years ago
2
How to get the bmat or pmat loadings for PC1-50?
#53
linwang6
closed
5 years ago
2
Is it possible to label filterCells on a per sample basis?
#52
AlexChitsazan
closed
5 years ago
13
UMAP and t-SNE
#51
sean00002
opened
5 years ago
2
Problem with runCluster and leiden
#50
sean00002
closed
5 years ago
1
error in generating snap file from bed file
#49
xinhuang420
opened
5 years ago
2
Run findDAR error with provided 10X PBMC 5K scATAC-seq
#48
linwang6
closed
5 years ago
16
scaleCountMatrix function error in step 13
#47
znavidi
opened
5 years ago
0
Step 13 - human genes - marker genes
#46
znavidi
closed
5 years ago
2
Bmat required before Pmat runJDA?
#45
vagarwal87
opened
5 years ago
1
Warning during barcode selection
#44
JBreunig
closed
5 years ago
6
single-cell cell type labels - 10x Genomics
#43
znavidi
closed
4 years ago
8
Converting pmat to Cicero CDS
#42
Austin-s-h
closed
5 years ago
6
10X dataset after snaptools dex-fastq
#41
znavidi
closed
5 years ago
9
Memory Issue with small bins / merge individual snap objects in R?
#40
jogiles
opened
5 years ago
11
runJDA with Knit Rmarkdown
#39
JGASmits
closed
5 years ago
7
snap file for non-standard genome
#38
vagarwal87
closed
5 years ago
4
error in bedGraphToBigWig
#37
Shiywa
opened
5 years ago
17
Add doSNOW to Imports or Suggests?
#36
hypercompetent
closed
5 years ago
1
error in clustering by `leiden`
#35
Shiywa
closed
5 years ago
11
chromVAR integration
#34
JBreunig
closed
5 years ago
2
GREAT Input
#33
JBreunig
closed
5 years ago
2
How to determine the parameter of significant PC/K in KNN graph construction
#32
seishin0125
closed
5 years ago
5
error in createSnap()
#31
IMJoeyZhu
closed
5 years ago
2
Merging 3+ samples
#30
JBreunig
closed
5 years ago
2
Human blacklist file in step5 Bin filtration (SnapATAC)
#29
EDYAC
closed
5 years ago
1
Human vs. Mice Step 3. Fragments-in-promoter ratio
#28
EDYAC
closed
5 years ago
7
snap-add-bmat
#27
EDYAC
closed
5 years ago
3
error in addBmatToSnap
#26
Shiywa
opened
5 years ago
17
About the filtering cells based on FIP ratio
#25
seishin0125
closed
5 years ago
6
$ snaptools snap-pre
#24
EDYAC
closed
5 years ago
27
peak_bc_matrix_mex_matrix.mtx file from 10X?
#23
EDYAC
closed
5 years ago
4
runmacsforall error python locale encoding
#22
KyleFerchen
opened
5 years ago
7
intstall snaptools in linux by python 3.7 in anaconda
#21
Shiywa
closed
5 years ago
2
add leiden clustering
#20
wayneidoyle
closed
5 years ago
0
Error in creating Pmat
#19
Zepeng-Mu
closed
5 years ago
28
Filtering samples in snap object?
#18
Zepeng-Mu
closed
5 years ago
4
Sample integration - advice
#17
hamishking
closed
5 years ago
8
promoter file not found
#16
Zepeng-Mu
closed
5 years ago
1
snaptools dex-fastq input argument 10x barcodes
#15
smanne07
closed
5 years ago
3
Error in H5Dread
#14
huidongchen
closed
5 years ago
6
Merging snap objects
#13
andrewhill157
closed
5 years ago
5
Combine 10X scATAC FASTQs before dex-fastq ?
#12
hamishking
closed
5 years ago
3
snaptools was supported in windows?
#11
Shiywa
closed
5 years ago
8
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