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bugs
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reset
0
votes
11
replies
944
views
limma::contrast.fit() potential bugs when weights from voom() included
bugs
limma
8 months ago
Zhenyu
• 0
0
votes
2
replies
1.2k
views
AffyBatch and ArrayExpress
arrayexpress
affy
bugs
updated 5.2 years ago by
James W. MacDonald
63k • written 5.2 years ago by
Ed Siefker
▴ 230
5
votes
16
replies
1.5k
views
GSVA package scores are opposite on mac and windows
GSVA
bug
gsva
bugs
updated 5.7 years ago by
Robert Castelo
★ 3.0k • written 5.7 years ago by
JasonL_Weirather
▴ 10
0
votes
1
reply
922
views
bug in dba.overlap (dba.plotVenn)
DiffBind
bugs
updated 6.0 years ago by
Rory Stark
★ 4.8k • written 6.0 years ago by
jeremydt
• 0
2
votes
3
replies
1.2k
views
A bug of "seqlevels<-" on TxDb
txdb.hsapiens.ucsc.hg19.knowngene
seqlevels
bugs
updated 6.5 years ago by
Hervé Pagès
16k • written 6.5 years ago by
wcstcyx
▴ 30
5
votes
2
replies
965
views
AnnotationHub: two broad peaks from same url are not the same
annotationhub
bugs
encode
bed
6.5 years ago
wcstcyx
▴ 30
0
votes
0
replies
869
views
Bugs for impute package
bugs
impute
6.7 years ago
Shicheng Guo
• 0
0
votes
4
replies
1.4k
views
DESeq2 contrast cleaning problem
software error
bugs
deseq2
updated 7.3 years ago by
Michael Love
40k • written 7.3 years ago by
john.hu
• 0
0
votes
0
replies
1.2k
views
error: no slot of name "expressionFamily" for this object of class "CellDataSet"
monocle
bugs
7.5 years ago
wanghao1993333
• 0
0
votes
2
replies
1.3k
views
x-axis ticks are misaligned in ggbio tracks
ggbio
bugs
tracks
autoplot
8.3 years ago
cooketho
• 0
4
votes
3
replies
1.3k
views
arrayQualityMetrics error with one color array and log transform
arrayqualitymetrics
bugs
error
updated 8.6 years ago by
James W. MacDonald
63k • written 8.6 years ago by
daugherty_a
• 0
0
votes
4
replies
1.8k
views
DESeq2 more differentially expressed genes
Bugs
deseq2
updated 8.7 years ago by
Michael Love
40k • written 8.7 years ago by
lmf.bill@gmail.com
▴ 10
0
votes
0
replies
1.3k
views
ggbio() + geom_alignment has stopped working
Bugs
ggbio
8.7 years ago
Anne Deslattes Mays
▴ 30
13 results • Page
1 of 1
Recent ...
Replies
Comment: Adjusting for baseline when having longitudinal data, mixed model and no treat
by
Gordon Smyth
47k
limma already adjusts for the baseline expression level of each subject. Trying to include baseline expression explicitly in the linear mod…
Comment: Remove duplicate genera in DEseq output?
by
ATpoint
★ 2.9k
This seems to be very specific rather than a general and technical DESeq2 question. See the last point of https://support.bioconductor.org/…
Comment: Use with_go along with other filters in getBM function
by
RuBBiT0
▴ 10
Hi @mike-smith , you are correct. I was trying to select the ones that have some GO annotations by using the `with_go` filter. I was confus…
Answer: Can VST-transformed community composition data be expressed as relative abundanc
by
Michael Love
40k
The point of the VST is to make the data systematically homoskedastic (that is, not systematic trend of variance over mean, but not e.g. fo…
Comment: How to update a package at Bioconductor
by
ma79
• 0
thanks, just informed the original maintainer to send an email.
Votes
A: Using R package 'limma' on pre-normalized counts and the effect of non-equivalen
Using R package 'limma' on pre-normalized counts and the effect of non-equivalent reads/sample on limma linear model
A: What can I do if I only have TPM but not raw counts data?
What can I do if I only have TPM but not raw counts data?
Differential expression of FPKM from RNA-seq data using limma and voom()
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Hervé Pagès
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63k
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