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Hi,
I was wondering if I can provide a custom signature gene file in quantiseq?
If yes then can you tell me how can I do that ?
Thank you in advance.
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Hi,
I was wondering about the properties of AutoGeneS' cell-type score. I couldn't find any information in the manuscript if the score
* is relative to the total immune cell fraction (like CIBER…
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@NNoureen and @syzheng used their method EXTEND to quantify telomerase activity and performed a number of comparisons [`AlexsLemonade/OpenPBTA-analysis/analyses/telomerase-activity-prediction`](https:…
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To methods folder.
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Hi Developers of Immunedeconv
I have a bulk heterogeneous tissue RNAseq(that hasnt been facs sorted at all)
May I know if it Is it possible to extract cell-type specific expression from my datamatri…
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Hello,
I am running the tutorial of MuSiC to check that everything runs properly before moving to my own data, but while running the function:
m.prop.GSE50244 = rbind(melt(GSE50244.EMTAB.prop$Est.…
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Hello:
Thank you for developing such a good R package, but Why can't I use CIBERSORT in immunedeconv?
I always get this:
assertion failed: CIBERSORT.R is provided
many thanks
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Hi,
I have two RNA-seq datasets: one is polyA and the other is stranded. Both have some common cancer types so I combine them into a single matrix of common genes prior to running xCell and CIBERSO…
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In the current version 1.0.2, if users use the snakemake pipeline, there is no way to set their customized cell signatures, and they are forced to use CIBERSORT immune cell signatures. The pipeline wo…
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#### What analysis module should be updated and why? https://github.com/AlexsLemonade/OpenPBTA-analysis/tree/master/analyses/immune-deconv/plots
#### What changes need to be made? Please pr…