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Hello,
I am very interested in using your tool for my analyses but I was wondering if it can be used on integrated data. I am performing analyses on scRNA from different studies and sequencing tech…
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Hi Squidpy developers:
I am looking for using squidpy to measure the spatial autocorrelation (like Moran's I ) for genes in spatial dataset.
I was wondering if the result would be different…
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Hi Johannes,
When working with the human `EnsDb` version 112 I obtained an unexpected result. Specifically, it seems a substantial number of genes (and transcripts) are not included in the current `E…
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We added a nmdc schema Class for the gene aggregation for the sequencing workflows, see https://microbiomedata.github.io/nmdc-schema/FunctionalAnnotationAggMember/, but not for the metaproteomics. I b…
aclum updated
1 month ago
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Hi Alex,
Thanks for the great tool!
I'd like to plot sequencing saturation like cellranger. I wonder if I can get the accumulating saturation from the bam file.
according to this: https://github…
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When Bionetworks provide Tier 1 metadata for CxG we should be able to create DCP spreadsheets that have their Tier 1 fields populated. We will need that for:
- populating projects that are not current…
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I'm using Django rest framework to auto generate a schema for a very simple API, one endpoint listGenes returns a json object which is an array of objects:
```
[
{
"id": 1,
…
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I am having an issue using Scissor to annotate bulk RNA sequencing (of paired tumor & normal samples) with single-cell tumor sequencing.
Here is my code:
```
## import bulk RNA seq data
bulk…
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My name is Jemima and I recently started a PhD working on stool and vaginal samples from a clinical trial in SSA. I am currently working on sequencing the full 16s gene on nanopore platform. I have s…
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Is 'depthNorm = TRUE' in the scGAD function equivalent to BandNorm? Should I first use BandNorm and then calculate the scGAD for each gene and perform 'depthNorm = TRUE', or should I directly use 'dep…