User: purinprima1

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Posts by purinprima1

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Comment: C: Problem with construction of DESeqDataSet object
... I think I the installation of deseq2 was probably not done properly. I tried with commands: if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("DESeq2") Output: Error in loadNamespace(name) : there is no package called ‘BiocManager’ install. ...
written 5 months ago by purinprima10
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Comment: C: Problem with construction of DESeqDataSet object
... Hi Michael, Thank you for your respond. Is this what you mean? > dds class: DESeqDataSet dim: 349947 48 metadata(1): version assays(1): counts rownames(349947): TRINITY_DN0_c0_g1 TRINITY_DN0_c1_g1 ... TRINITY_DN9_c1_g1 TRINITY_DN9_c1_g2 rowData names(0): colnames(48): NST24_rep1 NST24_rep2 ... ...
written 5 months ago by purinprima10
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Problem with construction of DESeqDataSet object
... Hi, I am a new user of DESeq2, and encounter problem in creating the DESeqDataSet object. I have counts data from kallisto (kallisto.gene.counts.matrix) with 48 samples that I want to use as an input. And I have created a metadata in .txt format to be combined with the count matrix. The commands I ...
deseq2 written 5 months ago by purinprima10 • updated 5 months ago by Michael Love25k

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