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_simpleSingleCell_ uses quite a few data sets (Zeisel brain, four pancreas, mammary gland stuff), many of which are probably generally useful to other people. I can also imagine other situations where…
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Hi,
I'm trying to follow your documentation on predicting edge scores on your example data. I ran into the following issues:
- I get the following error when I ran the command `KERAS_BACKEND=thean…
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I have some experience using R (no Python unfortunately) but am having some trouble figuring out how to implement your t-SNE pipeline. In the preprint, you mention that it should be relatively easy to…
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Hello,
I would grateful if you help me to complete the analysis of the given dataset.
Everything works fine until I try to use Analysis => Wishbone
It does not proceed and at the terminal it show…
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Extend RiboViz to use [UMI-tools](https://umi-tools.readthedocs.io/en/latest/) (discussed in #37) for barcode and UMI extraction and subsequent deduplication.
* #57 is a precursor to this issue, re…
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Dear inferCNV developers,
I am running inferCNV tool to infer CNV from multiple myeloma patients using 10x SC-RNA-seq data. In multiple myeloma, the plasma cells are the tumor cells and we would bel…
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Hi,
I test your tutorial data that seem run well.
But when I test my data, using this command:
`cpm.res = CPM(test.sc, test.label, test.bulk, test.dim)`
then I got some errors below:
```
[1] "…
QqQss updated
5 years ago
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Hi,
In scran's findMarkers(), users can set batch as the 'block' in the model, so marker identification will not be influenced by batch effect (https://rdrr.io/bioc/scran/man/findMarkers.html, I fo…
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Hi,
First of all thanks a lot for your help and this is kinda continuation of thread #2335 . After the update I started running the code but something still confuses me just for clarification this …
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Hi, thanks for your great tool!
I have some questions about the input data.
Should I input **pre-normalized values** (e.g. TPM / FPKM / CPM or their log values) or just **raw counts** for both bu…
QqQss updated
5 years ago