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Oshlack
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splatter
Simple simulation of single-cell RNA sequencing data
GNU General Public License v3.0
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Increased heterogeneity is only described on first PC
#172
vali301s
opened
1 month ago
1
Library scale factors not saved in simulation?
#171
ewaldvandyk
closed
3 months ago
2
Simulation of specific patterns of genes along the "Step" when simulating paths.
#170
spriyansh
closed
5 months ago
4
Meaning of `sizeFactor` in colData?
#169
kuang-da
closed
6 months ago
2
Simulating batch effects
#168
HelloWorldLTY
closed
7 months ago
5
rownames/colnames not identical in `splatSimDropout()`
#167
wanlinjuan
closed
9 months ago
5
function in splatter for comparing simulations
#166
emine2441
closed
7 months ago
17
Fix the `mean` of genes, only vary `DEFacGroup` between different simulations
#165
yuw444
closed
1 year ago
2
How to generate genes with fixed distributions?
#164
wanlinjuan
closed
9 months ago
4
Is it possible to simulate condition effect without using splatpop?
#163
yujias424
closed
1 year ago
2
How to simulate marker genes
#162
VivLon
closed
1 year ago
7
Issue 158
#161
azodichr
closed
1 year ago
1
Conditions incorrectly assigned to samples
#160
jordimartorell
closed
1 year ago
3
Different cde.prob for each group
#159
jordimartorell
opened
1 year ago
2
Batch effect despite disabled parameters?
#158
LeonHafner
closed
1 year ago
10
Simulate a specific topology with `phenoSimulate()`
#157
lazappi
closed
1 year ago
2
Simulation of Pseudotime with splatSimulatePaths()
#156
spriyansh
closed
1 year ago
7
Update GitHub Actions workflow
#155
lazappi
closed
1 year ago
0
Can I fix the batch effects factor?
#154
gerrardmai
closed
1 year ago
2
spike.mu missing bug in BASiCSEstimate()
#153
lazappi
closed
2 years ago
1
No clear clusters in splat simulation
#152
XinyeZhao
closed
1 year ago
4
Issue # 149 bug fixes
#151
azodichr
closed
1 year ago
5
Clustering analysis on simulated data
#150
DongzeHE
closed
2 years ago
3
The "Row.names" column is different with the rownames of the RowData in SplatPop result
#149
duohongrui
closed
1 year ago
3
Simulation of one sided differential expression
#148
jackbibby1
closed
2 years ago
9
splatPop (unknown correlation between gene expression level in different cell types)
#147
Fatima-Zare
closed
2 years ago
6
Splatter (unknown correlation between gene expression level in different cell types)
#146
Fatima-Zare-tfs
closed
2 years ago
0
Is it possible to use multithreading when apply splatPopEstimate?
#145
mugpeng
closed
2 years ago
4
Is it possible to set the dropout rate like 10, 20, 30 % dropout?
#144
inoue0426
closed
2 years ago
3
Is it possible to set the exact number of cells belonging to a group?
#143
inoue0426
closed
2 years ago
7
Better start value for x0 when estimating dropout parameters
#142
duohongrui
closed
2 years ago
3
Can we use this package with M1 Mac?
#141
inoue0426
closed
2 years ago
2
SplatPop DE genes within groups and condition
#140
LeonHafner
closed
2 years ago
1
Simulating hierarchical datasets
#139
LeonHafner
closed
2 years ago
5
Changing the number of samples with splatPop
#138
LeonHafner
closed
2 years ago
3
Annotating simulated genes as differentially expressed or not
#137
dinithins
closed
2 years ago
2
Finding marker genes in eah group
#136
emkahuda
closed
2 years ago
9
How to set de.prob to get a specific number (or estimation) of DE genes per cluster?
#135
emkahuda
closed
2 years ago
2
Use initialize() method instead of prototype for Params class
#134
wenjie2wang
closed
2 years ago
4
Problem with splatEstimate() when using a particular dataset
#133
Felitsiya
closed
2 years ago
3
Initialization of `seed` for `Params` virtual class
#132
wenjie2wang
closed
2 years ago
3
Remove duplicated lines in splatSimPathCellMeans()
#131
lazappi
closed
2 years ago
0
computeSumFactors function in scran package was moved to scuttle package
#130
duohongrui
closed
2 years ago
3
Added citation and link to vignette for splatPop
#129
azodichr
closed
2 years ago
0
Update splatPop citation
#128
lazappi
closed
2 years ago
2
Splatter: which parameters can cause individual variability( expression levels of genes should change across samples)
#127
Fatima-Zare
closed
2 years ago
6
Fixed bug 125
#126
azodichr
closed
2 years ago
1
Error when simulating more samples with splatPop
#125
wanghao98
closed
2 years ago
2
Dynamic path.nSteps? Feature request
#124
alexandruioanvoda
closed
2 years ago
5
Splat pop updates
#123
azodichr
closed
2 years ago
0
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