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The inclusion of `versioneer.py` adds an unsatisfied requirement for a setup.cfg file (with content relevant to vesioneer I presume). The file is mentioned profusely in the versioneer comments, and re…
pcm32 updated
5 years ago
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If you have CellBrowser installation already running and you want to update it, users that already visited your installation won't see the new `js` and `css` files, because they have their old copies …
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Hi,
I have a fully processed Seurat object and I want to create a lean version (i.e. minimal size) for a Shiny app that enables plotting (`@data` and `@scale.data`) and has 1-2 `@meta.data` variables…
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`../../cellBrowser/src/cbScanpy -e filtered_gene_bc_matrices/hg19/matrix.mtx -o myscanpyout -n pbmc3k`
```
INFO:root:Creating myscanpyout
cbScanpy $Id: 1e7c40a1801e210aa974d42ddb5ea5f4d3f225e6 $
I…
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Not really sure what's going on, but calling cbImportSeurat2 on the rds file results in the following errors:
```
Loading required package: Seurat
Loading required package: ggplot2
Loading require…
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It would be better to preserve the original value from markers gene file, and display it to the user in the exponent format (like 1.220254e-15)
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Hi Guys,
this it perhaps rather a question than issue,
Is there a way to export raw data in csv format? If I do this
`adata.write_csvs("filename", skip_data=False)`
it works perfectly fine…
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It seems like the rectangle select doesn't function after one of the latest updates.
Here's an example of a broken rectangle select, created 2019-03-11: https://genome-test.gi.ucsc.edu/~mspeir/cb_…
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It would be great if in the near future cellBrowser could read loom files (https://linnarssonlab.org/loompy/format/index.html) as input, either expecting t-SNE coordinates in a particular slot of loom…
pcm32 updated
5 years ago
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```
cbScanpy --init
Usage: cbScanpy [options] -e matrixFile -o outDir - run scanpy and output .tsv files
If exceptions occur, will automatically start the debugger.
cbScanpy: error: no such op…