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GenomicRange
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Need Help w/ Subset on GRangesList
GenomicRange
GenomicRanges
11 weeks ago
mat149
▴ 70
0
votes
1
reply
732
views
DeSeq2 and GenomicRange installation possible conflict with bioconductor version 3.16?
DESeq2
version3.16
installation
bioconductor
GenomicRange
updated 16 months ago by
James W. MacDonald
65k • written 16 months ago by
hong
• 0
1
vote
11
replies
903
views
Finding genes with loss of Heterozygosity
genomicrange
updated 4.0 years ago by
Kevin Blighe
★ 3.9k • written 4.0 years ago by
AZ
▴ 30
5
votes
2
replies
544
views
Intersecting two big dataframe
genomicrange
intersect
updated 4.1 years ago by
James W. MacDonald
65k • written 4.1 years ago by
AZ
▴ 30
4 results • Page
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Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
James W. MacDonald
65k
You will need to show some reproducible code for anybody to track this down. Please note that `DESeq2` has been used by thousands of people…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
Alexandre
• 0
My code for the sessionInfo() . If the pictures are too big, I will downsize them. THank you again for reading my post ! ```r > sessionInf…
Comment: Reproducibility issue with scran together with lapply and BiocParallel
by
ATpoint
★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel
by
Aaron Lun
★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Votes
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
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