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Good afternoon! I have been sporadically tinkering with my GRN analysis for some time, and I am running into various problems. For starters, the number of unique target genes detected by Pando is less…
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Hi,
I am trying to run the Seurat analysis of the two spleen samples to get the labels of the spots (Macrophage, B, T cells). It will report an error in the line 76
> spleen 1
Do you have any …
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Input of definitions and list of values can be found:
https://github.com/pha4ge/Wastewater_Contextual_Data_Specification/tree/main/Template
The following table combines the info from above and add…
edsu7 updated
3 months ago
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Hi,
When doing downstream analysis we remove cells that we do not trust, and after resizing this can result in peaks without any overlapping reads. It seems that chromVAR does not like this and ret…
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Hi!
Our scRNA-seq data was processed using the Seurat package. In order to run scDRS with our scRNA-seq data, I first converted the Seurat object saved as an RDS file to an h5ad file using the foll…
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Hi,
I encountered an issue while following the tutorial for interaction-programs.Rmd. Specifically, I encountered an error in the multi-condition part related to the comparative analysis using the …
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Thanks for your useful tools for scRNA analysis!
I just want to know for sure about input of run_de function when using a Seurat object:
Is input raw counts or "RNA" assay when de_family = "single…
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Dear Developer team,
Many thanks for building such a fantastic software, however I have some question regarding my pseudo time analysis.
Currently I am working with a Seurat object from a TNK …
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UPDATE: at the last single-cell curators call (May 11th 2022), @dosumis suggested to have a meeting/discussion to review and improve the branches most used by Annotare and Expression Atlas, and involv…
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To expand the MC2 data model, data type-specific metadata models should be assembled and reviewed by the community via the Request for Comments process. One strategy for implementing is as follows:
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