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rstudio
•
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0
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7
replies
1.9k
views
DESeq2 output used for PCA plot on R studio
DESeq2
RSTUDIO
PCAtools
updated 10 months ago by
swbarnes2
★ 1.4k • written 10 months ago by
Aaliya
• 0
0
votes
0
replies
504
views
RN to EC Mapping Not Working for Some Nodes
RStudio
ggkegg
updated 14 months ago by
James W. MacDonald
68k • written 14 months ago by
Ramirj49
• 0
2
votes
3
replies
838
views
NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
Rstudio
cDNA
ensembldb
NCBI
15 months ago
R_Page
• 0
0
votes
2
replies
953
views
Help Subsetting DDS for plotPCA for contrast groups
Rstudio
plotPCA
DESeq2
15 months ago
yee
• 0
1
vote
3
replies
827
views
Pan-organism OrgDb database, Accession number translated to organism name in R
AccNo
OrgDb
convert
Organismname
RStudio
updated 15 months ago by
James W. MacDonald
68k • written 16 months ago by
j_denton
• 0
4
votes
6
replies
2.3k
views
Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
RStudio
convert
ensembldb
NCBI
updated 5 months ago by
MauriAndres
• 0 • written 16 months ago by
j_denton
• 0
0
votes
7
replies
3.4k
views
Graphics API Version Mismatch Error with DESeq2 and ggplot2 in RStudio on Ubuntu 22.04
error
RStudio
ggplot2
DESeq2
updated 16 months ago by
James W. MacDonald
68k • written 16 months ago by
BioES
• 0
0
votes
1
reply
654
views
FALSE error when checking a pre made sample data
Rstudio
scRNAseq
DESeq2
updated 19 months ago by
ATpoint
★ 4.7k • written 19 months ago by
DrFizz
• 0
0
votes
1
reply
2.1k
views
DESeq2 error after installing BiocManager
scRNAseq
RStudio
DESeq2
updated 19 months ago by
ATpoint
★ 4.7k • written 19 months ago by
DrFizz
• 0
0
votes
2
replies
1.6k
views
Usinig BiocParallel package in R with M1 MAC
RStudio
R
M1
BiocParallel
Mac
updated 2.2 years ago by
Christian Mertes
• 0 • written 2.3 years ago by
me.achleitner
• 0
0
votes
1
reply
1.2k
views
Bug: MOFA2 sets an environment variable that breaks knit in RStudio
RStudio
MOFA2
bug
knitr
updated 2.4 years ago by
James W. MacDonald
68k • written 2.4 years ago by
Kevin Coombes
▴ 430
0
votes
1
reply
1.1k
views
Issue with installation of a package.
RStudio
flowFDA
updated 2.4 years ago by
Basti
▴ 780 • written 2.4 years ago by
kinoshamoodley
• 0
0
votes
14
replies
5.4k
views
GenomeInfoDbData had non-zero exit status
DESeq2
RStudio
GenomeInfoDbData
hadnon-zeroexitstatus
updated 2.4 years ago by
wshao9
• 0 • written 2.7 years ago by
JoseR
• 0
4
votes
5
replies
3.0k
views
DESeq2::plotPCA plotting error
RStudio
PCA
DESeq2
written 2.9 years ago by
960942
• 0
0
votes
0
replies
1.6k
views
function GDCquery_Maf error
rstudio
maftools
2.9 years ago
misslubblys
• 0
9
votes
14
replies
8.3k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl
Rstudio
ensembldb
AnnotationHub
ensdb
updated 7 months ago by
shepherl
4.1k • written 3.1 years ago by
jon.klonowski
▴ 40
0
votes
3
replies
1.9k
views
Reading large file (15GB) in R
R
Rstudio
Bioconducter
statistics
updated 3.0 years ago by
Sean Davis
21k • written 3.1 years ago by
Jitendra
▴ 10
0
votes
0
replies
821
views
Read the first sequence from fasta file - TFBSTool
TFBSTools
FASTA
RStudio
3.3 years ago
HELEN
• 0
0
votes
1
reply
1.1k
views
TFBSTools and readFASTA
TFBSTools
DNASeqData
readFASTA
DNA
RStudio
updated 3.3 years ago by
James W. MacDonald
68k • written 3.3 years ago by
HELEN
• 0
0
votes
0
replies
820
views
TFBSTools- analysis for trascriprion factors
TFBSTools
RStudio
R
3.4 years ago
HELEN
• 0
1
vote
5
replies
2.9k
views
DESeq2: All samples have 0 counts for all genes. check the counting script
DESeq2
RStudio
3.4 years ago
Sonia
• 0
0
votes
1
reply
2.7k
views
Unable to Install packages in R
rstudio
updated 3.5 years ago by
James W. MacDonald
68k • written 3.5 years ago by
Fiona
• 0
0
votes
4
replies
4.0k
views
transformation of csv file to fasta format with biostrings and r studio
DNASeq
rstudio
fasta
Biostrings
csv
3.5 years ago
HELEN
• 0
5
votes
15
replies
15k
views
Can't able to install Seurat in Rstudio
Rstudio
Seurat
updated 3.8 years ago by
Kevin Blighe
★ 4.0k • written 3.8 years ago by
KOUSTAV
• 0
1
vote
7
replies
4.1k
views
Error with hclust
dendrogram
hclust
textanalysis
R
RStudio
3.9 years ago
Abby
▴ 10
0
votes
1
reply
1.1k
views
Defining groups in Decipher by sequence position in the database (FASTA)
DefiningGroups
RStudio
DECIPHER
Specificprimers
updated 4.0 years ago by
Erik Wright
▴ 150 • written 4.0 years ago by
noeliaruizalonso23
• 0
1
vote
5
replies
5.6k
views
RStudio vs R: using rtracklayer to import bigwig files from http works in R but not in RStudio.
import.bw
rtracklayer
http
RStudio
updated 4.3 years ago by
Michael Lawrence
★ 11k • written 4.3 years ago by
Søren
• 0
0
votes
1
reply
1.2k
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub
Shiny
Rstudio
updated 5.0 years ago by
shepherl
4.1k • written 5.0 years ago by
bwiley4
• 0
0
votes
5
replies
2.1k
views
readTranscriptFeatures from genomation
R
Rstudio
Error
readTranscriptFeatures
genomation
updated 5.3 years ago by
altuna akalin
▴ 20 • written 5.3 years ago by
hwaterma
• 0
2
votes
1
reply
10k
views
Error: status was 'SSL connect error'
bioconductor
proxy
macOS
R
RStudio
updated 5.4 years ago by
Martin Morgan
25k • written 5.4 years ago by
mcall
▴ 20
0
votes
5
replies
2.1k
views
Using RStudio AMI with localhost
RStudio
AWS
AMI
5.6 years ago
bio-explorer
• 0
3
votes
6
replies
2.2k
views
Integer overflow issue with ChIPQC
ChIPQC
Rstudio
updated 5.7 years ago by
Martin Morgan
25k • written 5.7 years ago by
Nitesh Kumar Singh
▴ 30
1
vote
8
replies
3.1k
views
DESeq2/SummarizedExperiment RStudio shows Object With Null Pointer
deseq2
null
summarizedexperiment
rstudio
updated 5.7 years ago by
Martin Morgan
25k • written 5.7 years ago by
200dumplings
• 0
0
votes
0
replies
2.1k
views
Error in contrasts<-(tmp, value = contr.funs[1 + isOF[nn]]) : contrasts can be applied only to factors with 2 or more levels
software error
ballgown
rstudio
R
stattest
5.9 years ago
fatimarasool135
• 0
2
votes
4
replies
2.2k
views
make TxDb from list of genes
R
maketxdbfrombiomart
maketxdbfromgranges
rstudio
ensembl
updated 22 months ago by
Shreyash
▴ 10 • written 6.3 years ago by
rtwest
• 0
0
votes
4
replies
1.9k
views
New computer won't install DESeq2
deseq2
rstudio
install error
updated 6.4 years ago by
Michael Love
43k • written 6.4 years ago by
jyoung
• 0
2
votes
2
replies
4.4k
views
ColSideColors set by rows for heatmap.2 in RStudio
rstudio
heatmap.2
updated 6.6 years ago by
James W. MacDonald
68k • written 6.6 years ago by
austin.taylor
• 0
0
votes
1
reply
1.6k
views
Install Bioconductor package locally/temporarily
R
rstudio
package installation
updated 6.6 years ago by
Martin Morgan
25k • written 6.6 years ago by
ariel
▴ 20
0
votes
1
reply
2.2k
views
DeSeq2 installation on ubuntu fails
deseq2
R
ubuntu
bioconductor
rstudio
updated 6.6 years ago by
Michael Love
43k • written 6.6 years ago by
drumarsohail
• 0
0
votes
0
replies
1.3k
views
Running ASpli on R results in "Error: vector memory exhausted (limit reached?)"
aspli
rstudio
6.7 years ago
arphatak
• 0
1
vote
4
replies
1.9k
views
biomaRt scan error for latest assembly when indicating version Number
biomart
rstudio
ensembl mart
updated 7.0 years ago by
Mike Smith
★ 6.6k • written 7.0 years ago by
mullpaul
• 0
2
votes
4
replies
1.5k
views
R session terminates when trying to load affycoretools package
affycoretools
Rstudio
fatal error
updated 7.0 years ago by
James W. MacDonald
68k • written 7.0 years ago by
biostR
▴ 10
0
votes
2
replies
4.1k
views
Error in file.choose() : file choice cancelled
package development
bioconductor
rstudio
rmarkdown
vignettes
7.3 years ago
clarisbaby
• 0
1
vote
2
replies
1.6k
views
Rstudio session aborts when using read.celfiles()
oligo package
Rstudio
fatal error
microarray
CEL
7.3 years ago
biostR
▴ 10
0
votes
0
replies
1.9k
views
Problem with heatmap by ComplexHeatmap
complexheatmap
Rstudio
NOISeq
7.5 years ago
Luiz
• 0
0
votes
1
reply
2.2k
views
Trouble installing Bioconductor in R-studio (R version 3.3.1)
bioconductor
rstudio
updated 7.6 years ago by
Martin Morgan
25k • written 7.6 years ago by
yog312
• 0
1
vote
1
reply
5.3k
views
MA plot in R
rstudio
r
plotMA
7.7 years ago
g.k
• 0
0
votes
3
replies
3.0k
views
error installing cummeRbund in R studio (Windows desktop)
Rstudio
cummerbund
error
7.7 years ago
mszskb
• 0
0
votes
4
replies
1.7k
views
problem in installing flowclust
rstudio
flowclust
updated 7.7 years ago by
shepherl
4.1k • written 7.8 years ago by
shadhiksk
• 0
0
votes
1
reply
1.4k
views
can a function outliers be applied for a flowframe?
bioconductor
flow cytometry
rstudio
updated 7.8 years ago by
SamGG
▴ 360 • written 7.8 years ago by
shadhiksk
• 0
50 results • Page
1 of 1
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Replies
Answer: library org.Hs.eg.db failing to install
by
James W. MacDonald
68k
It should just install. ``` > library(BiocManager) Bioconductor version 3.20 (BiocManager 1.30.25), R 4.4.1 (2024-06-14 ucrt) W…
Comment: Surprising behavior for DEXseq dispersion estimate plot?
by
Elijah
• 0
Thank you so much for your quick reply! I was worried if some underlying technical artifact or unusual behavior would be causing the patter…
Answer: Surprising behavior for DEXseq dispersion estimate plot?
by
Michael Love
43k
The red points are just slowly moving toward -Inf. They tend to have variance < mean (if it were a simple design and you could just look at…
Answer: DESeq use in lipidomic analysis
by
Michael Love
43k
I would go for limma rather than a NB-based method. See the papers on limma for metabolomics / proteomics.
Answer: DiffBind - question on the use of filtered or unfiltered input data
by
robert
• 0
[FFH4X][1] Injector is a Free Fire mod menu software that includes a variety of intriguing hack features such as aimbot, auto headshot, fly…
Votes
Answer: Surprising behavior for DEXseq dispersion estimate plot?
Answer: Surprising behavior for DEXseq dispersion estimate plot?
Answer: Surprising behavior for DEXseq dispersion estimate plot?
Calculating TOM in blockwise WGCNA
A: What is the "linear model" part used for in Limma?
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