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reset
0
votes
11
replies
1.6k
views
limma::contrast.fit() potential bugs when weights from voom() included
bugs
limma
21 months ago
Zhenyu
• 0
0
votes
2
replies
1.6k
views
AffyBatch and ArrayExpress
arrayexpress
affy
bugs
updated 6.3 years ago by
James W. MacDonald
66k • written 6.3 years ago by
Ed Siefker
▴ 230
5
votes
16
replies
2.4k
views
GSVA package scores are opposite on mac and windows
GSVA
bug
gsva
bugs
updated 6.7 years ago by
Robert Castelo
★ 3.3k • written 6.7 years ago by
JasonL_Weirather
▴ 10
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 7.1 years ago by
jeremydt
• 0
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
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
0
votes
0
replies
1.1k
views
Bugs for impute package
bugs
impute
7.8 years ago
Shicheng Guo
• 0
0
votes
4
replies
1.7k
views
DESeq2 contrast cleaning problem
software error
bugs
deseq2
updated 8.4 years ago by
Michael Love
42k • written 8.4 years ago by
john.hu
• 0
0
votes
0
replies
1.5k
views
error: no slot of name "expressionFamily" for this object of class "CellDataSet"
monocle
bugs
8.6 years ago
wanghao1993333
• 0
0
votes
2
replies
1.6k
views
x-axis ticks are misaligned in ggbio tracks
ggbio
bugs
tracks
autoplot
9.4 years ago • updated 9.3 years ago
cooketho
• 0
4
votes
3
replies
1.5k
views
arrayQualityMetrics error with one color array and log transform
arrayqualitymetrics
bugs
error
updated 9.6 years ago by
James W. MacDonald
66k • written 9.6 years ago by
daugherty_a
• 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
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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Replies
Comment: Trouble reading samplesheet in with diffbind to create dba
by
Mallory
• 0
Thank you for your reply! There mustve been something wierd going on with my peak formats as you pointed out. I recalled all the peaks and …
Answer: Trouble reading samplesheet in with diffbind to create dba
by
Anthony
• 0
I was struggling with this today too. For me it happened because my peak files were not in the correct format. The "10 elements" refers to …
Comment: gds in GEOmetadb 2023-06-26 version is empty
by
Frederico Moraes Ferreira
▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
James W. MacDonald
66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat
by
Michael Love
42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Votes
Answer: Get the latest gene name from Entrez ID
Get the latest gene name from Entrez ID
Answer: biomaRt not working - lazy table error
Answer: How to do DESeq2 on Kallisto Data
Comment: Most enriched pathway is not expressed when modifying universe parameter
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