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So far there's a demo for training on test set, but not for using a trained model on new data.
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10x atac-seq data does not have UMI. Souporcell gives:
```
Traceback (most recent call last): File "/opt/souporcell/souporcell_pipeline.py", line 104, in assert float(num_umi) / float(num_read_te…
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**Primary Wrangler:**
Ami
Project ShortName: DevelopmentalCellProgramsSkin
Google Sheet:
https://docs.google.com/spreadsheets/d/13kLndCrN4y2xLTGjVR6pKhEYu0SGTmwr/edit#gid=1323794650
Array Expres…
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The vignette "Introduction to scRNA-seq integration" shows the latest veersion (here: 5.0.0)
https://satijalab.org/seurat/articles/integration_introduction
How can I call up the vignette for an ea…
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## 概要
scRNA-seq本 第5章をやる
## Todo
- [x] Single Cell RNA-seqデータの探し方
- [x] クラスター毎に自動で細胞種ラベルを付与する
- [x] FeaturePlotで遺伝子発現を確認する
- [ ] Single Cell RNA-seqデータセット同士を結合する
- [ ] バッチエフェクトを補正して、コントロール群と刺激…
dogTK updated
4 months ago
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Hi,
May I ask how does souporcell handle situations with extremely uneven (smth like 95% of cells from individual 1 and 5% - from individual 2, or even more skewed) ratios of cells from different i…
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I have a scenario where I am splitting input FASTQ files for scRNA seq into multiple smaller files and generating .rad files using piscem map. Now, I need to run the generate-permit-list, collate, and…
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Hi! I had run demuxlet successfully before, but am now encountering an error:
NOTICE [2020/10/19 20:10:39] - Processing 7470000 markers...
NOTICE [2020/10/19 20:10:39] - Processing 7480000 markers…
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This issue will collect all feedback submitted via the feedback form at the end of each tutorial
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Results have been [aggregated](https://nbviewer.jupyter.org/github/bebatut/galaxy-training-m…
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https://mp.weixin.qq.com/s/-aLbYuaVd7eRRp6Q7-yaZQ
ixxmu updated
1 month ago