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@RibaA maybe we can link a GitHub code from one of your projects (eg: run Combat or sva) even if its just one line. |
almas2019
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Dec 17, 2025
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Batch Correction:
- PCA: there is Harmony which is a PCA based batch correction tool , so although PCA is used for visualization, Harmony is commonly used in batch correction in single cell data, and uses PCA
- These are mainly batch correction methods used in bulk data, should we also be including some of the commonly used methods in single cell analysis?
Signature analysis/ Pathway analysis: Recommend adding description about Hallmark gene sets as it is commonly used in pathway analysis especially in cancer
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Add more info about single cell batch correction? I added one type. Make pathways section more comprehensive (currently a bit short, open to review)? |
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@sisiranair I added steps and required materials. Feel free to review and let me know if it is easy to follow. I still try to figure out better way to show the example if CO issue wasn't solved.