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Hi there
I'm wondering what the best advanced config options are for single-cell RNA-seq data. Our data is by nature very sparse (< 1x transcriptome coverage), but we have reason to think we'll find …
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The goal of this ticket is to prototype FAIRification process for datasets that in ArrayExpress and GEO but don't exist in either DCP or SCEA
Proposed datasets
https://www.ebi.ac.uk/arrayexpress/…
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Hello,
I read your recent paper in PNAS with great interest and am really excited by the elegant way in which it is able to detect gene interaction networks. I would like to apply this to my data …
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Dear Stephane,
With great interest I have read your recent publication in Genome Biology and seen phASER, which I would really like to use for my own work. So I was wondering if I could ask your ad…
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Hi Brad, Hi Rorky, I was wodering are planing to add 10x to the supported Platform for scRNA-Seq?
Thanks!
Alessandro
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Hi
I am using unicycler to run hybrid assembly of a bacterium genome with both nanopore and illumina data. Spades ran into some issues, could anyone please help me figure out what is going on here?
…
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Hi
I am using unicycler to run hybrid assembly of a bacterium genome with both nanopore and illumina data. Spades ran into some issues, could anyone please help me figure out what is going on here?…
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The QC pipeline needs to be updated to handle single nuclei (sc)RNA-seq from 10xGenomics data.
Fastq generation should be the same as for scRNA-seq data so the changes will be in the QC pipeline, s…
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Hi Aaron,
cool to see you're involved in this project!
I want to create reference data to use with SingleR, is it ok to generate pseudobulks from an annotated SC dataset? And would I need to TPM the…
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Hi,
I noticed that destiny function `DiffusionMap` is slow when import large scale single cell rna seq data, however the scanpy`sc.tl.diffmap` is speedup when treat the same data.
so I wond…