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Dear all,
What is the corresponding table in case of mouse genome in this command?
genes.df = read.table("gencode.v19.annotation.gene.bed");
Thanks
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Hey,
Sorry for asking here, don't know if this is the place to ask. First of all thanks a lot for this amazing book! OSCA is really helpful!!
I have a question regarding the section [3.4 OSCA Mu…
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Hello. Does this work for scRNA-seq data? What are the changes that can be made to make it working in scRNA-seq data if it is possible?
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Following #758, we should go through all materials here and in the exercises to make sure that all of the results are still as expected and build without errors.
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Hi! I have a huge 10X scRNA-seq mouse data (~60Gb BAM file | ~50K cells from 12 mice) that I am trying to run on cellSNP-lite. I compiled cellSNP-lite in an HPC environment and I am running it from th…
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Hello,
Thank you for developing such a wonderful method.
Recently, I attempted to execute somatic variant calling from scRNA-seq data, following the step-by-step instructions provided on your GitHub…
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@aqzas @Huffyphenix ,
I am using CATT to extract TCR/BCR information from data from scRNA-seq of immune cells, involving more than 100 datasets. Your article gives a performance comparison of each to…
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When I did cNMF in spatial transcriptomics, in which the n_counts of one spot could be smaller than scRNA-seq cell. It usually encounter that I have to drop many spots, due to there is no highly varai…
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Hi @hxj5 , I have a question regarding 10X 5' scRNA-seq data.
For 5' sequencing, the read containing cell barcode and UMI contains part of the transcript https://kb.10xgenomics.com/hc/en-us/article…
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In the current version 2.1.2 of the scATAC analysis pipeline, some samples encounter SIGNALS errors during merging due to high memory usage.
**This issue will be optimized in the next version.**
T…