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`stepwise_regression` selects a model and passes it to generate top ranked differential expression gene lists.
There are cases where covariates are not independent and therefore, need to be exclud…
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**User story**
User wants to perform computation on (a subset of) the data that is used for visualization in Vitessce. For example, to perform a differential expression test between two groups of c…
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In the REST API, we have a switch to include nonspecific probes when selecting expression data or differential expression results per gene. This is necessary because we don't want to show probes that …
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[20200301-M_liver1VSM_liver3_Gene_differential_expression.xlsx](https://github.com/evaleiyuhang/practice/files/8935873/20200301-M_liver1VSM_liver3_Gene_differential_expression.xlsx)
[20220619 ma plot…
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Thanks for sharing this dataset. I would like to ask for the data from cellxgene, is the batch correction applied for both the **low-dimensional reduction embedding** (e.g. UMAP) and the **expression …
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Since the model simulates the behavior of the cell and the perturbation of the cell itself, there needs to be some kind of validation (maybe in another branch) to describe and compare the simulation i…
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Perhaps wishfull thinking, but when I searched on A. baumannii 34654, the public genome that I mapped private RNA seq data to, and then imported the differential expression results using the DIff Exp …
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I am using diffxpy to calculate differential gene expression analysis, but every time the iteration for the calculation starts and is ended quickly with the same error. What could be the reason?
Th…
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Recently I have noticed that when I tried to visualize up-regulated and down-regulated signaling ligand-receptor pairs using bubble plot, sampe LR pairs appears in both the up-regulated side and down-…