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Would it be possible to show a simple example from a 10x Visium output from Space Ranger and how TACCO can interact with it? Even just read in and annotate the spatial data. I am having trouble with t…
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I'm using your tool to have a look at my spatial transcriptomics data, as the h5 files are missing.
The Seurat object that I have obtained presents the gene_ids as features (e.g., ENSG00000187634, EN…
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Dear sir, madam,
I keep running into the following problem. It is not to me clear what this means and how to resolve. I hope you can help me further.
command: calcRPKMsFromBAMs(bedFile,bamFiles ,…
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Hello I am doing the vignette code by code
of here https://kstreet13.github.io/bioc2020trajectories/articles/workshopTrajectories.html
https://github.com/kstreet13/bioc2020trajectories/blob/maste…
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Hi!
When running the deconvolution step of CARD I get this error, I am not sure what the issue is and how dim(X) could be negative.
```
CARD_obj = CARD_deconvolution(CARD_object = CARD_obj)
## …
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Hi Lieke,
I am sorry to bother you again.
According to the information what you provided, I download the canonical transcript for each gene and used them as the symbol of gene to fetch the sequen…
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http://144.6.229.160/variantopedia/view_variant/259636852
Score in VG is for AL645608 not SAMD11. Probably complicated by gene changes (see second image for a re-run with gencode v36 - image truncate…
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Dear colleagues,
I'm currently working on single cell data from developping skeletal muscles and I am interesting in using clustifyr to annotate my cells according to the muscle cell atlas one can …
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https://mp.weixin.qq.com/s/UVTFumVv2R6u3FzPQp_gZg
ixxmu updated
5 months ago
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Hi,
https://github.com/satijalab/seurat/issues/1201#issue-417843748
In reference to the above issue. I was wondering if there is a way to rename all the genes of a seurat object with mouse data to …