help for package DESeq2 in R
1
0
Entering edit mode
@ndiayediop2-15825
Last seen 6.4 years ago

hi 

i would like a help please

dds=DESeqDataSetFromMatrix(count = count,colData = colData,design = ~condition)

Error in DESeqDataSet(se, design = design, ignoreRank) : 
  some values in assay are negative

mirna-seq • 1.1k views
ADD COMMENT
0
Entering edit mode
Levi Waldron ★ 1.1k
@levi-waldron-3429
Last seen 5 days ago
CUNY Graduate School of Public Health a…

The error message seems clear: DESeq2 is intended for count data, and counts cannot be negative. You'll have to identify an appropriate statistical model and implementation for your data. This answer is necessarily vague because I don't know anything about your experiment or data. This online course (https://www.edx.org/xseries/data-analysis-life-sciences) and associated textbook (https://leanpub.com/dataanalysisforthelifesciences) introduce different linear models and their implementations in R/Bioconductor.

ADD COMMENT
0
Entering edit mode

thank you Levi Waldron.i will try after.

ADD REPLY

Login before adding your answer.

Traffic: 743 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6