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Question: error message in the identification of differentially expressed genes step using EdgeR program
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gravatar for sham-jdeed
1 day ago by
sham-jdeed • 0
sham-jdeed • 0 wrote:
Fatal error: Exit code 1 ()
Warning message:
599 very small variances detected, have been offset away from zero 
Error in fitFDistRobustly(var, df1 = df, covariate = covariate, winsor.tail.p = winsor.tail.p) : 
  Variances are mostly <= 0
Calls: glmQLFit
rna-seq egder galaxy • 28 views
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modified 16 hours ago by Jennifer Hillman Jackson ♦ 25k • written 1 day ago by sham-jdeed • 0
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gravatar for Jennifer Hillman Jackson
16 hours ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

The error message is not enough to give exact advice, except that the data is too sparse (low count) for the experimental design.

See the tool form help for methods to tune parameters, EdgeR tutorials, Bioconductor support, and related EdgeR documentation, including https://bioconductor.org/packages/release/bioc/html/edgeR.html.

Thanks! Jen, Galaxy team
ADD COMMENT • link written 16 hours ago by Jennifer Hillman Jackson ♦ 25k
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