User: krushnach80

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krushnach80400
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Posts by krushnach80

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Comment: C: Error in the r package "pubmed.mineR"
... can you show what the pubmed_result.txt contains? like what field it contains or header ? ...
written 4 days ago by krushnach80400
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Comment: C: How to define and use samples of WGCNA
... can you show the code?what you are using , You have mostly technical replicates .. ...
written 9 days ago by krushnach80400
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Comment: C: RNA seq help: limma remove batch effect without full rank design
... "1) Is this attempt at batch correction appropriate? Perhaps yes to be on the safer side..you can use SVA ...
written 17 days ago by krushnach80400
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Comment: C: Split columns keep the first coordinate from start and end
... well since now mostly use R so i was looking for R based but sed is absolutely fine as well i need to learn sed to make my life bit easier and thanks for the clear cut solution ...
written 17 days ago by krushnach80400
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Comment: C: Split columns keep the first coordinate from start and end
... i was thinking of giving of dput() but sorry for that next time i would do the needful .let me try it and let you know ,wonderful it worked i been struggling with it quite a while .. ...
written 17 days ago by krushnach80400
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Split columns keep the first coordinate from start and end
... I have this data file trying to format it for circos plot so far i have made the data files as such the structure of my dataframe is as such Symbol Chr Start End RBM11 hs21 14216130;14216145;14216153;14216154;14216178;14219553;14219553;14219563;14219563;14221097;14221097;14221097;14221097 ...
R written 17 days ago by krushnach80400 • updated 17 days ago by zx87545.4k
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Comment: C: Compatibility between my reference genome and GTF file
... simple suggestion go for gencode you can find the genome assembly and gtf file at the same place of various corresponding versions ...
written 22 days ago by krushnach80400
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Comment: C: Calculating Reads And DE From BAM Files
... I was looking for the same since i m looking for transcript level quantification so I aligned the file in quantmode in star now i have bam files so i can simply use featurecounts and do differentiatial exon analysis ? ...
written 25 days ago by krushnach80400
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Comment: C: how to choose optimal K in Consensus clustering
... you mean genes greater than samples? ...
written 26 days ago by krushnach80400
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Comment: C: R functions edited for parallel processing
... both clusgap and the correlation matrix calculation ...
written 26 days ago by krushnach80400

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