User: sfpacman

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sfpacman0
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Posts by sfpacman

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Comment: C: computeSumFactors: warning about cluster size
... Thanks, I have installed the latest version. I am wondering how to use BiocParallel  for quickCluster with igrpah option. Also, is it normal to consume 60 to 80 gb of memory for the matrix of this kind of size  ?   ...
written 8 weeks ago by sfpacman0
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Comment: C: computeSumFactors: warning about cluster size
... Thank you very much. I think I have the older version of scran (scran_1.2.2) , because it does not have the options for method and  get.ranks when I try to use quickCluster. It may sound silly , but I wonder if there is any way to work around it. If not, I probably have to upgrade both R  and biocon ...
written 9 weeks ago by sfpacman0
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computeSumFactors: warning about cluster size
... I am running computeSumFactors on a rather large expression matrix ( 68K ~ 20K).  Instead of running quickCluster on such a large matrix, I use k-mean clustering result from a previous analysis ( PCA of top 1000 variable genes). However, it returns the following warning upon finished : number of cel ...
sizefactors scrnaseq scrn written 9 weeks ago by sfpacman0

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