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BioNERO
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BioNero - problem with module_trait_cor function
BioNERO
8 months ago
matevz.likar
• 0
0
votes
3
replies
899
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Issue with module-trait analysis in BioNero
BioNERO
updated 18 months ago by
Fabricio Almeida-Silva
▴ 40 • written 18 months ago by
Biologist
• 0
0
votes
2
replies
726
views
Data processing with BioNERO
BioNERO
Pviz
16 months ago • updated 14 months ago
zxd95
• 0
0
votes
1
reply
485
views
Filter the GRN networks based on the optimal scale-free topology (SFT)
GRN
BioNERO
updated 13 months ago by
Fabricio Almeida-Silva
▴ 40 • written 14 months ago by
majeedaasim
• 0
1
vote
1
reply
405
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BioNERO and Cystoscope
#BioNERO
BioNERO
Cystoscope
updated 13 months ago by
Fabricio Almeida-Silva
▴ 40 • written 13 months ago by
Hasani
• 0
0
votes
0
replies
208
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bioNeuro plot_expression_profile - how to order samples in plot output
plot_expression_profile
BioNERO
6 months ago
Christopher
• 0
6 results • Page
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Comment: Deseq2 and Normalization of RNA sequencing data
by
ATpoint
★ 4.1k
There is no expectation of normality that is realistic in terms of expression level. Levels are widely different between genes, and counts …
Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Answer: More regions in union when increasing DBA$config$mergeOverlap
by
Rory Stark
★ 5.2k
I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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Rory Stark
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