Property
|
1
|
2
|
3
|
4
|
5
|
6
|
---|
|
protocol adaptive
|
gene preserved
|
gene cor. captured
|
cell num. seq. dep. flexible
|
transparent
|
comp. and sample efficient
|
---|
Simulator
|
dyngen [77]
|
|
✗
|
✗
|
| ✓ | ✓ |
Lun2 [78]
|
| ✓ |
✗
| ✓ | ✓ | ✓ |
powsimR [75]
| ✓ | ✓ |
✗
| ✓ | ✓ | ✓ |
PROSST [68]
|
| ✓ |
✗
|
| ✓ | ✓ |
scDD [74]
| ✓ |
✗
|
✗
|
| ✓ | ✓ |
scDesign [35]
| ✓ |
|
✗
| ✓ | ✓ | ✓ |
scGAN [72]
| ✓ | ✓ |
|
|
✗
|
✗
|
splat simple [69]
| ✓ |
✗
|
✗
|
✗
| ✓ | ✓ |
splat [69]
| ✓ |
✗
|
✗
|
✗
| ✓ | ✓ |
kersplat [69]
| ✓ |
✗
|
|
✗
| ✓ | ✓ |
SPARSim [71]
| ✓ | ✓ |
|
✗
| ✓ | ✓ |
SPsimSeq [79]
| ✓ | ✓ | ✓ |
**
| ✓ | ✓ |
SymSim [70]
| ✓ |
✗
|
✗
|
✗
| ✓ | ✓ |
ZINB-WaVE [39]
| ✓ |
|
|
✗
| ✓ | ✓ |
SERGIO [76]
| ✓ |
|
✗ ∗
| ✓ | ✓ | ✓ |
scDesign2
| ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |
- Property 1: protocol adaptiveness
- Property 2: gene preservation
- Property 3: gene correlation capture
- Property 4: flexible cell number and sequencing depth choices
- Property 5: transparency
- Property 6: computational and sample efficiency
- For each simulator and each property, a checkmark, checkcross, or cross means that the simulator satisfies, partially satisfies, or does not satisfy the property, respectively
- *SERGIO requires a user-specified gene regulatory network, and it does not capture/estimate gene correlations from a real dataset
- **SPsimSeq can vary cell number but not sequencing depth