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Let's use this issue / thread to troubleshoot what looks like `rna.rsem_count` crashing compute nodes. I'll start off by adding my notes from the past related to this.
BTW, whenever you see "I w…
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```python
scvi.model.TOTALVI.setup_mudata(
mdata,
rna_layer="counts" if rna_use_raw else None,
protein_layer="counts" if protein_use_raw else None,
modalities={
"rna_layer"…
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Error seu@assays$RNA$counts : $ operator not defined for this S4 class.
If the issue of compatibility since I couldn't upgrade Seurat package to ‘5.1.0’ in the server which has no issue of running?
…
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IMO, `convert` should not exist for mutable types (i.e. types with object identity), because it can be called implicitly, which can lead to very weird stuff:
```julia
julia> x = dna"TAG";
julia> …
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### Ask away!
Hi!
**I get an error in the log file:**
executor > local (24)
[bd/f84e36] process > validate_sample_sheet [100%] 1 of 1, cached: 1 ✔
[d7/72c478] process > fastcat (10)…
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Does TElocal work with long read bulk RNA-seq? If so, has anyone done this, and, are there any reccomrecommendations on how to run it?
Thank you,
FR
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From gwas-info:
"I downloaded the catalog data from your website (gwas-association-downloaded_2022-05-19-EFO_0000729.tsv) and unfortunately recognised, that all occurrences of the gene name Y_RNA are…
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I was previously running RNNdetector on a Windows 10 machine but started to run short of space on the local 'C:' drive. To provide additional storage space I wanted to change the 'Local container sto…
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* **Term to be merged: Provide GO ID and term label**
GO:0106005 RNA 5'-cap (guanine-N7)-methylation
GO:0036265 RNA (guanine-N7)-methylation
* **Which term do you propose this term merge int…
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Hi,
I have paired-end (2X100) RNA-seq data of variable post-trimmed length (2X36-100nt). For a good fraction of samples, I am getting very low uniquely mapped reads % and very high% of reads to mult…