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I am following the notebook to understand the steps of single-cell RNA seq.
I had the same [issue #21](https://github.com/theislab/single-cell-tutorial/issues/21#) for the version of scanpy, so I …
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Command line: /home/u4244/anaconda3/envs/spades/bin/spades.py -k 21,33,55,77 --careful -1 /home/u4244/data/tb/0-ref/1-mapping/bwa_R1.fastq -2 /home/u4244/data/tb/0-re…
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**Submitting author:** @EgorOrachyov (Egor Orachev)
**Repository:** https://github.com/JetBrains-Research/spbla
**Version:** v1.0.0
**Editor:** @Nikoleta-v3
**Reviewers:** @abb58, @mlxd
**Managing Ei…
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Hi.
I was a bit confused about the purpose/meaning of `SCTransform` because of the lack of statistic knowledge.
I try to compare two cells, which cell is more active/variant. I try to get the v…
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Good day,
I am excited to use this tool for building a reference for my study. However, I am having problems integrating single cell and nuclei datasets. When I used the standard integration method…
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Hi there,
I am analyzing mouse RGC sc-RNA seq dataset and want to analyze the transcriptive program after nerve crush.
Let's say we have two datasets, one is naive composed of 4 batches, the other o…
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Chris emailed with Blue Lake and came to this conclusion:
> FYI,
> Blue has clarified how Snare RNAseq & ATACseq should be classified. In short:
>
>> They both are single nucleus assays, but fo…
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Hi!
Thank you for tutorials, they're very helpful.
Do you have a spatial/sc-rna seq integrative analysis tutorial?
Thanks in advance!
...
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We are having problems when we combine 6 of our CITE-seq datasets. The workflow is fine when we just use 2 of the datasets combined, but when we use all 6 I can never get the training step to work. …
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Hello,
Maybe a simple question. I have a vcf file (merged.vcf) derived from bulk RNA-Seq of 8 individuals. I performed a scRNA-seq experiment on the same individuals and ran souporcell with the foll…