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Can you share any scripts that you have to convert an arbitrary scRNA-seq cell-by-gene matrix into the format your model inputs?
Thanks
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Create an endpoint that takes
- dataset uuid
- file name (relative path)
And produces:
- Mass spec instrument method
- LC instrument method
- Running parameters of the raw file
…
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I have downloaded a PBMC 3x scRNA-seq dataset (10X platform) as a reference to run DWLS spatial deconvolution for 10X Visium dataset. The analysis requires a metasheet with cell annotations and class …
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Hi,
I think a file is missing here, either it was not added to the repo or it was moved and its
location was not updated.
In [scRNA-seq/R-scripts/seurat_clustering.R] on line 111,
I think th…
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Hi @huangyh09,
First of all, huge thanks for developing Vireo!
I've been testing it using a synthetic pool (3 donors), and I've noticed a high number of unassigned cells, particularly from one don…
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## Release date
The paper has not been published, for now the expected date for the release is January 2023
### Project short name: YolkSacMultiOrganFunctions
### Primary Wrangler: Ida
### Secon…
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Hi Tao,
I realized there is one more piece of metadata that we should update. Assuming it is the same as previous experiments, I think the scRNA-seq biosamples are missing the property "subcellular…
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Hello!
I am looking for ways to get a map of cell types in CL to Cell Components in the Gene Ontology.
I think this can be a path to get a set of markers for classes in some smart ways, as som…
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作者您好，非常令人深刻的工作，目前我在重复示例相关工作时，通过Linux系统首先通过Conda建环境，包括用conda安装GenomicRanges和IRanges，在JupyterLab下面运行示例代码：
```
system.time(
#1.start to run the wrapper functions for example.
Pagwas_data
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Hi ZijieJin,
I tried the docker using first on my local but since the base image is not defined and my system is Mac I got incompatibility error! I tried on our hpc, since npc uses singularity I ha…