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Gene expression analysis and network construction for bachelor thesis
bachelorthesis
help
HELP
updated 8 months ago by
DrFizz
• 0 • written 8 months ago by
melander
• 0
2
votes
6
replies
1.3k
views
Help me find the bug
DESeq2
HELP
14 months ago
Michael
• 0
0
votes
4
replies
1.2k
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Volcano plot becomes flipped when I add a third condition
DESeq2
volcanoplot
deseq
HELP
contrast
updated 14 months ago by
Basti
▴ 770 • written 14 months ago by
Michael
• 0
0
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2
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704
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Empty matrix
ChIPpeakAnno
Normalization
EnrichedHeatmap
HELP
TxDb.Celegans.UCSC.ce11.refGene
18 months ago
michela
▴ 20
3
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4
replies
1.2k
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why makeGRangesFromDataFrame don't do the IRange
HELP
HelloRanges
updated 18 months ago by
James W. MacDonald
65k • written 18 months ago by
michela
▴ 20
0
votes
10
replies
1.5k
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Peak annotation
HELP
ChIC.data
PeakDetection
ChipOnChipData
18 months ago
michela
▴ 20
0
votes
1
reply
562
views
Data visualization
HELP
Data
updated 19 months ago by
Guido Hooiveld
★ 3.9k • written 19 months ago by
mcclurejenniferc
• 0
2
votes
4
replies
1.7k
views
STRINGdb string_db$map error
STRINGdb
HELP
updated 14 months ago by
Rodrigo
▴ 10 • written 2.1 years ago by
Jessica
▴ 10
1
vote
2
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2.4k
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ChIPpeakAnno findOverlapsOfPeaks error: "Error in FUN(X[[i]], ...) : Inputs contains duplicated ranges. please recheck your inputs."
HELP
ChIPpeakAnno
2.4 years ago
lexi.kellington
• 0
1
vote
9
replies
4.1k
views
DESeq problems
help
DESeq2
DESeqDataSetFromMatrix
rownames
updated 22 months ago by
Sanatan
• 0 • written 3.0 years ago by
dorina.jamniczky
• 0
3
votes
4
replies
1.3k
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GEO + RNA-seq. Total Newbie.
RNASeqData
RNASeq
GEO
RNASeqR
HELP
3.0 years ago
hgalmoore
• 0
0
votes
1
reply
2.0k
views
setup microbiome error
help
software error
updated 5.3 years ago by
Martin Morgan
25k • written 5.3 years ago by
mafusa20
• 0
0
votes
2
replies
998
views
Design matrix choice for time series experiment using limma
limma
time series
help
updated 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
rm1238
• 0
1
vote
4
replies
5.9k
views
ClusterProfiler - How to : input file, groupGo, enrichGo
clusterprofiler
input files
error
help
updated 7.1 years ago by
Guangchuang Yu
★ 1.2k • written 7.1 years ago by
Mataivic
• 0
4
votes
5
replies
2.5k
views
edgeR- DE analysis with no replicates
edger
differential gene expression
without replicate
nested design
help
updated 7.8 years ago by
Aaron Lun
★ 28k • written 7.8 years ago by
knipehf
• 0
0
votes
7
replies
1.8k
views
DESeq2 with interest only for 1 gene
R
deseq2
differential gene expression
help
7.8 years ago
fischer87
• 0
0
votes
2
replies
1.3k
views
help me to analysis my data
limma
help
updated 8.4 years ago by
svlachavas
▴ 830 • written 8.4 years ago by
libya.tahani
• 0
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Comment: How to retrieve detailed regression results from deseq2
by
Weiqian
▴ 10
Hi Michael, thanks for the answer! I'll have a look : )
Comment: DESeq filtering specific to contrasts
by
Michael Love
41k
It will likely not filter it out, but really the per-dataset details would affect the results.
Comment: DESeq filtering specific to contrasts
by
Carlin95
• 0
Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…
Comment: FilterByExpr low counts with small sample size
by
Jonathan
▴ 10
Thank you for your answer; However, I have some follow-up questions. Following up in In your [1-2-3 article][1], you say that > "... the…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Seyram M.
• 0
Thank you very much for your reply! I will do so. Kind regards, Seyram
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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