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Update index.md
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kendomaniac authored Sep 15, 2024
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Expand Up @@ -41,7 +41,7 @@ Integrated Benchmarking scRNA-seq Analytical Pipeline (IBRAP) contains a suite o
Benchmarking data can be created in wet lab or in silico by simulators. In this section we present some wet lab experiments and introduce some simulators.

### Simulators for creating benchmarking data
Despite the fact that simulators have several limitations, there has been a significant effort in the past few years to enhance their power, as noted by [*Cao et al. (2021)*](https://pubmed.ncbi.nlm.nih.gov/34824223/). The scDesign3, a simulator by [*Song et al. (2023)*](https://pubmed.ncbi.nlm.nih.gov/37169966/), appears to be a versatile tool that is capable of overcoming some of the limitations of other existing simulators, according to the developers. [*GRouNdGAN*](https://emad-combine-lab.github.io/GRouNdGAN/), GRN-guided in silico simulation of single-cell RNA-seq data using causal generative adversarial networks, is a causal implicit generative model for reference-based GRN-guided simulation of scRNA-seq [[*Zinati et al. 2024*](https://www.nature.com/articles/s41467-024-48516-6)]
Despite the fact that simulators have several limitations, there has been a significant effort in the past few years to enhance their power, as noted by [*Cao et al. (2021)*](https://pubmed.ncbi.nlm.nih.gov/34824223/). The scDesign3, a simulator by [*Song et al. (2024)*](https://pubmed.ncbi.nlm.nih.gov/37169966/), appears to be a versatile tool that is capable of overcoming some of the limitations of other existing simulators, according to the developers. [*GRouNdGAN*](https://emad-combine-lab.github.io/GRouNdGAN/), GRN-guided in silico simulation of single-cell RNA-seq data using causal generative adversarial networks, is a causal implicit generative model for reference-based GRN-guided simulation of scRNA-seq [[*Zinati et al. 2024*](https://www.nature.com/articles/s41467-024-48516-6)]

### Wet lab experiments

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