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HELP
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reset
4
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2.5k
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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
3
votes
4
replies
1.2k
views
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
3
votes
4
replies
1.3k
views
GEO + RNA-seq. Total Newbie.
RNASeqData
RNASeq
GEO
RNASeqR
HELP
3.1 years ago
hgalmoore
• 0
2
votes
4
replies
1.7k
views
STRINGdb string_db$map error
STRINGdb
HELP
updated 14 months ago by
Rodrigo
▴ 10 • written 2.2 years ago by
Jessica
▴ 10
2
votes
6
replies
1.4k
views
Help me find the bug
DESeq2
HELP
14 months ago
Michael
• 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
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
1
vote
2
replies
2.4k
views
ChIPpeakAnno findOverlapsOfPeaks error: "Error in FUN(X[[i]], ...) : Inputs contains duplicated ranges. please recheck your inputs."
HELP
ChIPpeakAnno
2.5 years ago
lexi.kellington
• 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
0
votes
10
replies
1.5k
views
Peak annotation
HELP
ChIC.data
PeakDetection
ChipOnChipData
18 months ago
michela
▴ 20
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
1.0k
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
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
1
reply
322
views
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
0
votes
4
replies
1.2k
views
Volcano plot becomes flipped when I add a third condition
DESeq2
volcanoplot
deseq
HELP
contrast
updated 14 months ago by
Basti
▴ 780 • written 14 months ago by
Michael
• 0
0
votes
2
replies
710
views
Empty matrix
ChIPpeakAnno
Normalization
EnrichedHeatmap
HELP
TxDb.Celegans.UCSC.ce11.refGene
18 months ago
michela
▴ 20
0
votes
1
reply
565
views
Data visualization
HELP
Data
updated 20 months ago by
Guido Hooiveld
★ 3.9k • written 20 months ago by
mcclurejenniferc
• 0
17 results • Page
1 of 1
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Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge
by
shuwangxinze1996
• 0
Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough?
Comment: DESeq2 output used for PCA plot on R studio
by
Kevin Blighe
★ 3.9k
This comment helps.
Comment: DESeq2 output used for PCA plot on R studio
by
Kevin Blighe
★ 3.9k
I am not sure how your comment helps here?
Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
by
Michael Love
41k
> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …
Votes
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?
Answer: How to retrieve gene ontology GO class from gene list?
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