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I handle a lot of data, HCA-scale. I would like a way to speed up the saving of large SCE. This could be achieved through low-level optimisation if possible, parallelization or possibly tuning of the …
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I'm trying to run FastMNN on a Seurat object from an existing analysis where I previously used Harmony integration but now I want the expression values to be batch corrected so I'm trying to use fastM…
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I wonder whether the bioinformatics ontology should be added to the eNM ontology?
http://bioportal.bioontology.org/ontologies/EDAM
There is some overlap with assays (regarding omics etc.) but also th…
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Hello!
I have found the paper and I think is pretty nice tool, but have some questions:
1. Can It be applied with integrated data? The data has been integrated with Seurat and normalized with …
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Dear All,
I am stressed with doing pseudotime analysis. I had performed scaling and dimensionality reduction on the filter_matirx data. I would like to further process the pseudotime analysis with on…
cli35 updated
3 years ago
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This is a question about the .table file. I understand that LIGER integrates the scATAC and scRNA-seq. What exactly does this .table contain, and how can I generate it from other pipelines (Seruat, sc…
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Hi I'm using moncle2 for analysis recently, but I found a very strange error, one of which is that when I access the _view(cds)_, there is a problem, the other is _cds.1 = 10, ]_ After screening the c…
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I am using SPIRO Assay for root growth analysis and at tracking root step I run into the following error:
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Currently I cannot apply a filter if previous filters have removed all of this data from my subset.
We should change this to allow application of filters with no data remaining in the subset. The …