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Hello,
I have a list of seurat objects that I read into a list. Then I merge them, split them by experimental condition, perform standard steps but when running the function FindIntegrationAnchors()…
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Thank you for this amazing package!
**Is your feature request related to a problem? Please describe.**
Currently, there does not seem to be a build-in method to pull or push `obsm` or `varm` annt…
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traceback:
```
Topiary commandline arguments:
Namespace(genome=None, ic50_cutoff=500.0, json_variants=[], maf=[], mhc_alleles='', mhc_alleles_file='/pgv-results/biokepi-coco-work/work/LLC-A9F1-no-s…
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**Describe the Error**
The function `anndataToGiotto`, even though it runs successfully, throws an error message.
This will happen if I use an alternative `env_name`.
...
**Error Message**
…
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Why does a script for which the name suggests RNA run here? What's this tool do?
```
`python /sfs/qumulo/qhome/vpr9v/code/dnameth_pipelines/src/tools/bisulfiteReadFiltering_forRNA.py
```
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Hi, thanks for your great tools. I have a problem to use it, How to run TransferData from single cell RNA from seurat object( with SCT method or normal method )?
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I'm following [Bassez](https://carmonalab.github.io/ProjecTILs_CaseStudies/Bassez_BC.html) tutorial. However, during classification step I encounter the following error:
```
> DefaultAssay(ref_cd8…
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Currently, InSituType takes only raw count matrices. This is logical, since scaling or transforming data might differ per dataset. However, the inability to take count matrices consisting out of float…
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Kindly comment on this issue why you are interested in this mini-project
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```
2 of chains: A
1 of RNA chains: A
wrong atom order in residue of chain A resid 1 P O5'
wrong atom order in residue of chain A resid 1 OP1 C5'
wrong atom order in residue …