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Hello,
I'm having an issue with running the lifton software. I'm running it on an HPC environment using 100GB memory and a computer node that has 2000 cores. The below bash script has the command I…
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Hi all,
Few requests:
1-It is unclear where the final merfish and snRNAseq datasets are on AWS; no README is supplied, and there are several folders with no description.
2-The repository is a me…
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Hi, thanks for a great package! I am working with a brain snRNAseq dataset and have run scDRS to test for the enrichment of MDD, ADHD, ALZ, MS, SCZ, and height GWAS hits (using the MAGMA scores from y…
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Hello,
I've been having issues running Liftoff. It's taking days to run and then terminates. I'm running it on an HPC environment using 100GB memory and a computer node that has 2000 cores. The bel…
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**Describe the bug**
Hi, using `iSEE` version 2.4.0 I can't seem to be able to set the heatmap annotation columns in the order I want them to be displayed.
If I go to https://libd.shinyapps.io/…
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The following datasets have missing the `metadata` fields in the metadata TSV files.
* Issue. Missing child `metadata` in `ingest_metadata`.
* Solution. Ingest the two metadata files in these two …
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The following categories are missing values in the `assay_type` and `assay_category` fields.
**Comment** these fields are missing on the datasets missing the `metadata` field as well. So may be the…
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Hello,
I'm using hg38 GTF from NCBI and ran liftoff with the Rhesus macaque FASTA and hg38 FASTA.
```
liftoff liftoff/rheMac10.fa liftoff/hg38.fa -g liftoff/hg38.ncbiRefSeq.gtf -p 10 -o liftoff…
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Hi!
I am trying to map my snRNAseq data to Hypomap, but when I run either `predict_query ` or `map_new_seurat_hypoMap`, I got the following error message:
```
Normalizing data
Matrix for annda…
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Hello,
I am trying to run scvelo in snRNAseq. I used kb-python to prepare the counts from my fastq data. I generated an index using—-workflow nucleus, and I ran kb count with that workflow, too.
T…