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Tested with "\\allen\programs\celltypes\production\humancelltypes\prod0\Ephys_Roi_Result_847895793\847895793.nwb"
On the Sweeps panel, experiment epoch thumbnails are downsampled (or smoothed) in a w…
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Hi,
the images from my spatial transcriptomics data don't fill the entire image so we I split up the image into smaller tiles I get an error that there are no cells (see error message below). Is t…
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Josh: note conversation in Teams with Alexei where he noticed both the QCFilter & Celltypes templates weren't respecting their Species parameters. Review entire workflow and find all use of Species pa…
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Great tool! Thanks a ton!
SingleR.DrawHeatmap(sro_imm_013_alltypes, labels = sro_imm_013_alltypes$scores, normalize = T, top.n = 50)
This plot gives me a plot but not with top 50 celltypes, but all…
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Investigate why these are not able to pass the QC processing step.
Bad data, or issue with QC code, or ?
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Hi! Thanks for this cool package!
I am using FLOWMAPfromDF on single cell data and one of my variables is celltypes, which I've labeled 1-11. They are not one of my clustering.vars (using PCs for t…
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Hi! I'm a causal inference and transcriptional data enthusiast, and I'm excited to try out scKINETICS because I think the backronym is really cool and it has a really neat way of getting around the st…
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I uploaded an nwb file (/allen/programs/celltypes/production/humancelltypes/prod76/Ephys_Roi_Result_720878765/nwb2_H18.03.313.11.14.01.07.nwb) into sweep qc tool, but when I tried to calculate feature…
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Any idea what this cryptic error message can be due upon calling the SCDC_Ensemble function?
Error in y[y > q85] q85]
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### What happened?
Running `viash test` on Nextflow workflows still doesn't work. There are two main issues:
- [ ] It's not able to detect its dependencies:
```
viash test src/workflows/run_…