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25
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NA values for mitochondrial gene percentage
Seurat
scRNAseq
1 hour ago • updated 13 minutes ago
zahra.mesri95
• 0
0
votes
1
reply
20
views
limma KNN classification with voom-transformed data
limma
KNN
updated 1 hour ago by
Steve Lianoglou
13k • written 6 hours ago by
andreas.scherer
• 0
0
votes
0
replies
13
views
News:
Ensembl 105 has just been released!
ensembl
biomaRt
ensembldb
3 hours ago
mchakiachvili
▴ 10
0
votes
1
reply
28
views
DNAStringSet(x, start=, end=) loses quality information
Biostrings
updated 3 hours ago by
James W. MacDonald
58k • written 8 hours ago by
Gerhard Thallinger
▴ 170
0
votes
0
replies
10
views
Job:
Research Scientist/Senior Research Scientist - National Center for Supercomputing Applications, Univ. of Illinois
supercomputing
bioinformatics
VariantCalling
healthcare
Agriculture
4 hours ago
Jenny Drnevich
★ 2.0k
1
vote
1
reply
41
views
Install package without updating dependent package
Install
AnnotationForge
updated 5 hours ago by
Lluís Revilla Sancho
▴ 650 • written 11 hours ago by
亮
• 0
1
vote
3
replies
103
views
Problem converting transcript to genomic coordinates with Annotation Hub
AnnotationHub
updated 12 hours ago by
Johannes Rainer
★ 1.9k • written 4 days ago by
nattzy94
▴ 10
0
votes
0
replies
17
views
DESeq2 analyze MeRIP-seq
MeRIP-seq
14 hours ago
BioEpi
• 0
0
votes
2
replies
62
views
Design formula in DESeq2
groups
dispersion
DESeq2
desing
1 day ago • updated 8 hours ago
m.glymenaki
• 0
0
votes
1
reply
74
views
Extension to knitr/Rmarkdown to ignore only specific warnings (not all) in a chunk
rmarkdown
suppressWarning
warning
updated 1 day ago by
Mike Smith
★ 5.3k • written 4 days ago by
Wolfgang Huber
13k
0
votes
1
reply
44
views
readIDAT output to beadarray package input file
Beadarray
readIDAT
updated 1 day ago by
James W. MacDonald
58k • written 1 day ago by
Đạt
• 0
1
vote
3
replies
79
views
interpretation complex design limma
limma
updated 8 hours ago by
Gordon Smyth
44k • written 1 day ago by
dfrtyu
• 0
0
votes
0
replies
28
views
DiffBind: dba.plotProfile(profiles)
DiffBind
1 day ago
bhanu.chandra1
• 0
1
vote
3
replies
75
views
Error in installing org.Hs.eg.db
org.Hs.eg.db
org.H
1 day ago
2041792073
• 0
0
votes
0
replies
37
views
Difference in output of logicle transform in different languages
flowCore
1 day ago • updated 20 hours ago
markkelly1983
• 0
0
votes
0
replies
24
views
Why is "SimpleList" not inheriting "list" ?
S4Vectors
1 day ago
Charles Plessy
▴ 140
3
votes
4
replies
113
views
DESEQ2 Results log2fold and pvalue changes after removing genes
DESeq2
2 days ago • updated 1 day ago
Bine
▴ 20
1
vote
3
replies
98
views
Question about DESeq2 statistical analysis
microRNAincats
updated 1 day ago by
Michael Love
35k • written 2 days ago by
sofia.hanas
• 0
0
votes
0
replies
27
views
Job:
Bioconductor developer
FlowCytometry
flowCore
1 day ago
markkelly1983
• 0
0
votes
3
replies
83
views
seqinfo got changed after `library(rtracklayer)`
rtracklayer
GenomeInfoDb
updated 1 day ago by
Michael Lawrence
11k • written 2 days ago by
Ge Tan
▴ 20
0
votes
1
reply
52
views
different results between DESeq model with multiple groups or with specific groups
DESeq2
updated 1 day ago by
Michael Love
35k • written 1 day ago by
giulia.lopatriello
• 0
0
votes
1
reply
93
views
diffbind binding affinity matrix
diffbind
DiffBind
updated 2 days ago by
Rory Stark
★ 4.2k • written 22 days ago by
akankshabafna
• 0
0
votes
1
reply
83
views
DiffBind bUseSummarizeOverlaps error - the rownames and colnames of the supplied assay(s) must be NULL or identical to those of the SummarizedExper…
DiffBind
ChIPSeqData
updated 2 days ago by
Rory Stark
★ 4.2k • written 10 days ago by
sfpacman
• 0
3
votes
4
replies
132
views
dba.contrast in DiffBind
v3.4.0
DiffBind
updated 1 day ago by
Rory Stark
★ 4.2k • written 8 days ago by
AMA
• 0
0
votes
1
reply
42
views
problem in installing "org.Hs.eg.db" package
org.Hs.eg.db
updated 2 days ago by
shepherl
2.9k • written 2 days ago by
Shuiqing
• 0
0
votes
1
reply
84
views
Problem with ArrayQualityMetrics PCA plot
arrayQualityMetrics
updated 2 days ago by
Wolfgang Huber
13k • written 15 days ago by
michael.s
• 0
0
votes
2
replies
119
views
CRISPRseek package: offTargetAnalysis() error with mouse genome
CRISPRseek
9 days ago • updated 2 days ago
nderian
• 0
0
votes
1
reply
80
views
Isolate contrasts in DESeq2 while using a combination of categorical and continuous variables
Contrast
design
DESeq2
continuous
updated 3 days ago by
Michael Love
35k • written 5 days ago by
tiansy
• 0
0
votes
1
reply
68
views
REAL() can only be applied to a 'numeric', not a 'integer'
#WGCNA
#tom
#integer
#REAL
#numeric
updated 3 days ago by
Mike Smith
★ 5.3k • written 5 days ago by
devbhavin20
• 0
0
votes
1
reply
51
views
Calculating dn/ds ratios
biomaRt
updated 3 days ago by
Mike Smith
★ 5.3k • written 5 days ago by
morgantom1221
• 0
0
votes
3
replies
98
views
Error in DESeq2
DESeq2
updated 3 days ago by
Michael Love
35k • written 3 days ago by
mithu18mohan
• 0
0
votes
0
replies
42
views
findOverlapsOfPeaks - peaklist of connectedPeaks="min:
findOverlapsOfPeaks
ChIPpeakAnno
chipseq
3 days ago
Nadav
• 0
0
votes
0
replies
24
views
How to choose singed or unsigned network in step-by-step WGCNA
WGCNA
3 days ago
synat.keam
• 0
0
votes
1
reply
111
views
cellHTS2 - normalization with BScore (performance
cellHTS2
Normalization
updated 4 days ago by
Wolfgang Huber
13k • written 6 days ago by
liebi83
• 0
0
votes
0
replies
37
views
graphite package SSL certificate
graphite
4 days ago
x
• 0
0
votes
0
replies
41
views
Relating modules to traits
WGCNA
5 days ago • updated 3 days ago
wes
• 0
1
vote
3
replies
179
views
Error with hclust
RNASeqR
#hclust
#wgcna
#dissimilarity
#average
updated 5 days ago by
ATpoint
▴ 870 • written 7 days ago by
devbhavin20
• 0
0
votes
0
replies
35
views
DBA Error in DiffBind - How to format sampleSheet
DBA
R
DifferentialPeakCalling
6 days ago
opheevallee
• 0
0
votes
2
replies
171
views
deseq2 datasetfrommatrix
DESeq2
updated 6 days ago by
ATpoint
▴ 870 • written 6 days ago by
Chay
• 0
1
vote
1
reply
124
views
Deseq2 contrasts and design for paired analysis
TimeSeriesExperiment
RNASeq
design
DESeq2
updated 6 days ago by
Michael Love
35k • written 6 days ago by
Kesava
• 0
0
votes
1
reply
107
views
Paired sample design in DESeq2
DESeq2
updated 6 days ago by
Michael Love
35k • written 6 days ago by
Liam
• 0
2
votes
3
replies
219
views
Suppress messages from ALL calls to load package
suppressPackageStartupMessages
Biobase
updated 6 days ago by
ATpoint
▴ 870 • written 7 days ago by
Elizabeth Purdom
▴ 210
0
votes
2
replies
93
views
Why does biomart have multiple positions for the same gene
biomaRt
7 days ago
adeler001
• 0
0
votes
9
replies
276
views
DEseq2 replicate normalization
DEseq2
replicate
DESeq2
normalization
7 days ago • updated 6 days ago
michael.morash
• 0
0
votes
1
reply
53
views
R CODE TO FIND AGGREGATE FOR DUPLICATES
aggregateBioVar
DEGseq
MicroarrayData
updated 7 days ago by
James W. MacDonald
58k • written 7 days ago by
biomyscience
• 0
0
votes
4
replies
185
views
Installing packages by bioconductor version 3.14
Bioconductor
7 days ago • updated 6 days ago
Evan
• 0
1
vote
1
reply
74
views
How to keep cells square in heatplot function of enrichplot
clusterProfiler
enrichplot
heatplot
7 days ago
fatimaruizdelabastida
• 0
1
vote
2
replies
65
views
Error in ld(): STRING_ELT() can only be applied to a 'character vector', not a 'NULL'
ld()
snpStats
7 days ago • updated 1 day ago
Anastasiia
• 0
6
votes
8
replies
248
views
Installing Bioconductor
Bioconductor
7 days ago
array chip
▴ 410
3
votes
23
replies
424
views
GEOquery run into problem with Sys.setenv("VROOM_CONNECTION_SIZE")
GEOquery
VROOM
7 days ago
array chip
▴ 410
41,739 results • Page
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Replies
Comment: NA values for mitochondrial gene percentage
by
zahra.mesri95
• 0
I do have MT genes.
Comment: NA values for mitochondrial gene percentage
by
ATpoint
▴ 870
Seurat is not a Bioconductor package, this question is off-topic here. Anyway, cross-posted https://www.biostars.org/p/9501021/
Answer: NA values for mitochondrial gene percentage
by
swbarnes2
▴ 930
It means that none of the gene names begin with "MT-". Can you confirm that the mitochondrial genes for your species do indeed begin w…
Answer: limma KNN classification with voom-transformed data
by
Steve Lianoglou
13k
For all intents and purposes, unless you are using a method that can take advantage of the observation weights that come out of `voom()`, "…
Answer: DNAStringSet(x, start=, end=) loses quality information
by
James W. MacDonald
58k
You didn't trim a `DNAStringSet`. You created a new one, so why would there be a warning? You can `narrow` the `DNAStringSet`, which would …
Votes
A: illumina ht-12 v4 expression beadchip
Answer: Install package without updating dependent package
Comment: Problem converting transcript to genomic coordinates with Annotation Hub
Answer: interpretation complex design limma
How to properly sort GRanges?
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