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Bugs
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0
votes
11
replies
1.6k
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limma::contrast.fit() potential bugs when weights from voom() included
bugs
limma
20 months ago
Zhenyu
• 0
0
votes
4
replies
2.1k
views
DESeq2 more differentially expressed genes
Bugs
deseq2
updated 9.7 years ago by
Michael Love
42k • written 9.7 years ago by
lmf.bill@gmail.com
▴ 10
5
votes
16
replies
2.3k
views
GSVA package scores are opposite on mac and windows
GSVA
bug
gsva
bugs
updated 6.6 years ago by
Robert Castelo
★ 3.3k • written 6.6 years ago by
JasonL_Weirather
▴ 10
0
votes
4
replies
1.7k
views
DESeq2 contrast cleaning problem
software error
bugs
deseq2
updated 8.3 years ago by
Michael Love
42k • written 8.3 years ago by
john.hu
• 0
4
votes
3
replies
1.5k
views
arrayQualityMetrics error with one color array and log transform
arrayqualitymetrics
bugs
error
updated 9.5 years ago by
James W. MacDonald
66k • written 9.6 years ago by
daugherty_a
• 0
5
votes
2
replies
1.3k
views
AnnotationHub: two broad peaks from same url are not the same
annotationhub
bugs
encode
bed
7.5 years ago
wcstcyx
▴ 30
2
votes
3
replies
1.5k
views
A bug of "seqlevels<-" on TxDb
txdb.hsapiens.ucsc.hg19.knowngene
seqlevels
bugs
updated 7.5 years ago by
Hervé Pagès
16k • written 7.5 years ago by
wcstcyx
▴ 30
0
votes
1
reply
1.1k
views
bug in dba.overlap (dba.plotVenn)
DiffBind
bugs
updated 7.0 years ago by
Rory Stark
★ 5.2k • written 7.0 years ago by
jeremydt
• 0
0
votes
2
replies
1.6k
views
AffyBatch and ArrayExpress
arrayexpress
affy
bugs
updated 6.2 years ago by
James W. MacDonald
66k • written 6.2 years ago by
Ed Siefker
▴ 230
0
votes
2
replies
1.6k
views
x-axis ticks are misaligned in ggbio tracks
ggbio
bugs
tracks
autoplot
9.3 years ago
cooketho
• 0
0
votes
0
replies
1.1k
views
Bugs for impute package
bugs
impute
7.7 years ago
Shicheng Guo
• 0
0
votes
0
replies
1.5k
views
error: no slot of name "expressionFamily" for this object of class "CellDataSet"
monocle
bugs
8.5 years ago
wanghao1993333
• 0
0
votes
0
replies
1.4k
views
ggbio() + geom_alignment has stopped working
Bugs
ggbio
9.7 years ago
Anne Deslattes Mays
▴ 30
13 results • Page
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Comment: ChAMP not available for bioconductor 3.19
by
Macsue
• 0
> if (!require("BiocManager", quietly = TRUE)) + install.packages("BiocManager") Bioconductor version 3.19 (BiocManager 1.30.23), R 4.4…
Comment: How to add Ensembl ids after Pseudobulk analysis by DESeq2
by
BioinfGuru
▴ 30
I would use biomaRt. This is what happens when annotation occurs to early. If possible I would run the DEG analysis on the original output…
Comment: Volcano plot of scRNA-seq data not "centered"
by
ATpoint
★ 4.2k
My comment was generic. If your experiment causes drastic shifts then the situation might be different. The advise is the same: Try to use …
Comment: conumee with Infinium MethylationEPIC v2.0
by
Maximus
• 0
Hi Sole, If there is a combined mixture of MSet of 450K, EPIC and EPICv2, how should I create an annotation object? I tried to create anno…
Comment: Volcano plot of scRNA-seq data not "centered"
by
tjl
• 0
Thank you both. The code is below, simplified a bit for simplicity. ATpoint, your suggestion re: the top 20% of genes by baseMean makes me …
Votes
A: Analyzing data without replicates using DiffBind
A: Analyzing data without replicates using DiffBind
DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol
DESeq2 swap ensembl gene id rownames with gene symbol column
A: DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Ge
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Robert Castelo
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kevin.rue
▴ 350
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Wei Shi
★ 3.6k
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50k
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jovel_juan
▴ 30
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