DESEq2 erroe
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Muhammad • 0
@b29d11d8
Last seen 2.2 years ago
Pakistan

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Code should be placed in three backticks as shown below

Hi! i am trying DESeq2 analysis but facing an issue when I used this command, can anyone help me, please.

dds <- DESeqDataSetFromMatrix(count_matrix = count_matrix, col_data = col_data, design = ~ condition) dds <- DESeqDataSetFromMatrix(count_matrix = count_matrix,

  • col_data = col_data,
  • design = ~ condition) Error in h(simpleError(msg, call)) : error in evaluating the argument 'x' in selecting a method for function 'ncol': argument "countData" is missing, with no default

    include your problematic code here with any corresponding output

    please also include the results of running the following in an R session

sessionInfo( )


hguatlas13k geNetClassifier ClusterJudge epigraHMM • 1.9k views
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ATpoint ★ 4.1k
@atpoint-13662
Last seen 6 hours ago
Germany

Use ?DESeqDataSetFromMatrix, the argument in the function to accept the counts is countData, not count_matrix. It's also colData and not col_data.

dds <- DESeqDataSetFromMatrix(countData= count_matrix, colData= col_data, design = ~ condition)
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thank you.

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