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I've been struggling with this package for several days, can't seem to figure out how this is supposed to be set up (I've never used R and don't have a lot of experience with this type of thing.
I…
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Sheets with tissue-specific cell count information from CellxGene and HCA portals to be added starting with kidney.
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**Describe the bug**
It's difficult to get to the explanation of how marker genes are calculated. See a demo in the screenshot section below.
Basically I have a lot of difficulty getting to the …
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I am using cellxgene for single-cell data analysis. Suppose I have a new dataset x.h5ad, how can I map its cell types to the cell types in cellxgene?
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@multimeric This query fails
```r
get_metadata() |>
+ filter(file_id_db=="e427efe71e8e94de5b3e48eb98236323") |> get_single_cell_experiment()
ℹ Realising metadata.
ℹ Synchronising f…
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Hi,
When providing a path to local 'downloaded reference file' I keep getting a following error
Warning: Error in : Cannot find directory /home/monib/R/cellxgene/data/lung_ref.Rds
55: stop
…
m0nib updated
2 years ago
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look for clustering benchmark datasets (from various domains) to test the approach and put the result into the documentation)
→ Clustering benchmark papers
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The desktop cellxgene build for ubuntu 3.9 is [failing](https://github.com/chanzuckerberg/cellxgene/runs/4221930006?check_suite_focus=true).
Looks like pip is trying to build from source and erroring…
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## Context
See [**cell-science-modalites**](https://czi-sci.slack.com/archives/C02TSE92DBM/p1713562383176259?thread_ts=1713374968.017459&cid=C02TSE92DBM).
@jahilton writes:
> Solution is to r…
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Top 3 candidates as determined by RICE modeling were:
1. Model organisms
2. Epigenomics
3. Antibody detection of protein abundance