User: castravete2712

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Posts by castravete2712

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Answer: A: zUMIs yaml configuration file for SPLIT-seq data help
... Found some answers here, still searching: https://github.com/sdparekh/zUMIs/issues/170 ...
written 6 months ago by castravete27120
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zUMIs yaml configuration file for SPLIT-seq data help
... Hello, I wanted to try [zUMIs][1] in order to analyze some split-seq data. I have the R1 and the R2 files and the barcodes, the star index is created and the gtf file is also loaded ... I have some trouble configuring the YAML file for zUMIs, or more precisely, I have trouble being sure I'm configu ...
single-cell zumis split-seq written 6 months ago by castravete27120
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Comment: C: Struggling to work on a large Count Matrix
... Well, as it wasn't really important to say why I was needing it, I didn't mention it. But I need to find what I have to do in order to import this complex and large data in R because I need to analyze a large count Matrix issued of single-cell sequencing (split-seq if I want to be precise). The co ...
written 7 months ago by castravete27120
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Comment: C: Struggling to work on a large Count Matrix
... Yeah, sorry, I was indeed meaning to say to import or load data ...
written 7 months ago by castravete27120
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Comment: C: Does anyone manage to install Monocle3 on Rstudio 3.6.1 (on Debian 9)?
... Okay, I didn't realize how much things can get tangled up. Thank you very much for the different advices, I'll be more careful ...
written 7 months ago by castravete27120
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Comment: C: Struggling to work on a large Count Matrix on Rstudio
... Yep, the RAM can't keep up. I was thinking of that but I can't manage to read the file directly into a sparseMatrix, avoiding the read.table step. read.matrix maybe? ...
written 7 months ago by castravete27120
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Struggling to work on a large Count Matrix
... Hello there, I'm struggling loading/importing my large count Matrix on Rstudio in order to analyze it. It's a quite medium sized data (3 Giga) but R is crashing every time and my PC want to seppuku itself each time. So, importing by only making a read.table won't work. I tried stocking it as a b ...
single-cell R countmatrix written 7 months ago by castravete27120 • updated 7 months ago by Jean-Karim Heriche23k
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Comment: C: Does anyone manage to install Monocle3 on Rstudio 3.6.1 (on Debian 9)?
... Well, I installed R through conda. So you say that I have to install all packages for R through conda, the Rstudio (that I also installed with conda) package installation is not recommended even if R is installed through conda? ...
written 7 months ago by castravete27120
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Comment: C: Does anyone manage to install Monocle3 on Rstudio 3.6.1 (on Debian 9)?
... I already encounter some problems with the conda version of the installation, it charges the monocle3 library but don't recognize functions from it, like newCellDataSet. ...
written 7 months ago by castravete27120
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Comment: C: Does anyone manage to install Monocle3 on Rstudio 3.6.1 (on Debian 9)?
... Ah indeed, that could occur. I'll try again correcting the issues I have with the installation from source the. Thank you! ...
written 7 months ago by castravete27120

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Supporter 7 months ago, voted at least 25 times.

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