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Rstudio
•
reset
0
votes
5
replies
2.9k
views
New Version of CummeRbund?
cummerbund
rstudio
8.3 years ago
lreiter
• 0
0
votes
20
replies
6.1k
views
SummarizeOverlaps in R
summarizeoverlaps
Bam
rstudio
updated 8.8 years ago by
Jake
▴ 90 • written 8.8 years ago by
Lillyhchen
▴ 10
9
votes
11
replies
5.7k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl
Rstudio
ensembldb
AnnotationHub
ensdb
updated 6 weeks ago by
shepherl
3.8k • written 2.3 years ago by
jon.klonowski
▴ 40
3
votes
3
replies
16k
views
Error in Knit R Markdown document (could not find function "Biocexptpkg")
rmarkdown
rstudio
knitr
7.5 years ago
Jon Bråte
▴ 250
0
votes
4
replies
1.4k
views
problem in installing flowclust
rstudio
flowclust
updated 6.9 years ago by
shepherl
3.8k • written 6.9 years ago by
shadhiksk
• 0
0
votes
3
replies
1.3k
views
GenomiFeatures is not available for R version 3.2.1
GenomiFeatures
rversion3.2.1
3.0
rstudio
8.6 years ago
serpalma.v
▴ 60
0
votes
2
replies
3.6k
views
Error in file.choose() : file choice cancelled
package development
bioconductor
rstudio
rmarkdown
vignettes
6.4 years ago
clarisbaby
• 0
0
votes
5
replies
1.5k
views
readTranscriptFeatures from genomation
R
Rstudio
Error
readTranscriptFeatures
genomation
updated 4.4 years ago by
altuna akalin
▴ 20 • written 4.4 years ago by
hwaterma
• 0
0
votes
9
replies
2.4k
views
is AClust package still available?
Aclust
Aclustering
Rstudio
Clusters
updated 8.7 years ago by
Nitish Kumar Mishra
▴ 40 • written 8.8 years ago by
Lillyhchen
▴ 10
0
votes
3
replies
1.1k
views
Getting annotated and normalized data.
microarray
rstudio
annotation
updated 9.0 years ago by
James W. MacDonald
65k • written 9.0 years ago by
jslow
• 0
1
vote
3
replies
23k
views
Converting first column to rownames
rstudio
8.2 years ago
John
▴ 30
0
votes
3
replies
2.6k
views
error installing cummeRbund in R studio (Windows desktop)
Rstudio
cummerbund
error
6.9 years ago
mszskb
• 0
0
votes
1
reply
1.1k
views
What preprocessing needs to be done on the Experiment datasets
colon
rstudio
golubesets
updated 8.1 years ago by
James W. MacDonald
65k • written 8.1 years ago by
shramanathakur
• 0
0
votes
2
replies
1.7k
views
Gene symbol annotation not converted for intergenic SNPs with multiple genes
annotation
variantannotation
rstudio
updated 8.1 years ago by
Valerie Obenchain
★ 6.8k • written 8.1 years ago by
noor.suaini
• 0
0
votes
4
replies
2.8k
views
Unable to install Rcpp package for genefo
Rcpp
genefo
linux
linux mint
Rstudio
updated 7.7 years ago by
mfox
• 0 • written 7.7 years ago by
anjali.krishna1008
• 0
2
votes
1
reply
4.5k
views
Reading fasta file with multiple sequences
multiple sequences
bioconductor
rstudio
seqinr
updated 7.2 years ago by
Martin Morgan
25k • written 7.2 years ago by
Riot
• 0
0
votes
2
replies
1.1k
views
Problem with cummeRbund
rstudio
cummerbund
7.1 years ago
sanathoi.guru
• 0
2
votes
4
replies
1.7k
views
RStudio quits unexpectedly while running DiffBind on R 3.4.0
software error
diffbind
rstudio
abort
quit
updated 7.0 years ago by
Gord Brown
▴ 650 • written 7.0 years ago by
msabbag2
• 0
0
votes
1
reply
1.1k
views
can a function outliers be applied for a flowframe?
bioconductor
flow cytometry
rstudio
updated 6.9 years ago by
SamGG
▴ 350 • written 6.9 years ago by
shadhiksk
• 0
2
votes
5
replies
765
views
Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
RStudio
convert
ensembldb
NCBI
5 months ago
j_denton
• 0
0
votes
1
reply
1.9k
views
DeSeq2 installation on ubuntu fails
deseq2
R
ubuntu
bioconductor
rstudio
updated 5.8 years ago by
Michael Love
41k • written 5.8 years ago by
drumarsohail
• 0
0
votes
4
replies
1.6k
views
New computer won't install DESeq2
deseq2
rstudio
install error
updated 5.5 years ago by
Michael Love
41k • written 5.5 years ago by
jyoung
• 0
1
vote
8
replies
2.7k
views
DESeq2/SummarizedExperiment RStudio shows Object With Null Pointer
deseq2
null
summarizedexperiment
rstudio
updated 4.9 years ago by
Martin Morgan
25k • written 4.9 years ago by
200dumplings
• 0
0
votes
1
reply
2.3k
views
Upload error in RStudio running on Amazon - AMI
AMI
RStudio
upload error
custom install
updated 9.3 years ago by
Dan Tenenbaum
★ 8.2k • written 9.3 years ago by
nicholas.provart
• 0
0
votes
3
replies
1.0k
views
how to include System Call Results in Sweave PDF report ?
Sweave
rstudio
updated 9.0 years ago by
Dan Tenenbaum
★ 8.2k • written 9.0 years ago by
a.afshinfard
▴ 10
0
votes
1
reply
1.2k
views
Recent problem with biomaRt query
biomart
biomaRt
R
rstudio
8.9 years ago
nickp60
• 0
0
votes
3
replies
2.1k
views
Getting different results with DESeq2
deseq2
results
rstudio
updated 8.8 years ago by
Michael Love
41k • written 8.8 years ago by
Lillyhchen
▴ 10
1
vote
3
replies
3.5k
views
Problem using display() function on RStudio
display
rstudio
annotationhub
updated 8.6 years ago by
James W. MacDonald
65k • written 8.6 years ago by
barashe
▴ 10
2
votes
5
replies
5.4k
views
Update R in Rstudio to specific version 3.2.1 in windows
updateR
rstudio
Rversion3.2.1
updated 8.6 years ago by
Dan Tenenbaum
★ 8.2k • written 8.6 years ago by
svlachavas
▴ 830
3
votes
7
replies
4.5k
views
goseq code after DESeq2 -NO IDEA!
goseq
DESEQ2
RSTUDIO
CODE
updated 8.5 years ago by
Steve Lianoglou
★ 13k • written 8.5 years ago by
amyfm
▴ 10
0
votes
2
replies
1.2k
views
Error viewing the data set Golub_Merge
golubEsets
rstudio
updated 8.2 years ago by
James W. MacDonald
65k • written 8.2 years ago by
shramanathakur
• 0
0
votes
1
reply
1.2k
views
Install Bioconductor package locally/temporarily
R
rstudio
package installation
updated 5.7 years ago by
Martin Morgan
25k • written 5.7 years ago by
ariel
▴ 20
2
votes
2
replies
3.8k
views
ColSideColors set by rows for heatmap.2 in RStudio
rstudio
heatmap.2
updated 5.7 years ago by
James W. MacDonald
65k • written 5.7 years ago by
austin.taylor
• 0
2
votes
1
reply
8.3k
views
Error: status was 'SSL connect error'
bioconductor
proxy
macOS
R
RStudio
updated 4.5 years ago by
Martin Morgan
25k • written 4.5 years ago by
mcall
▴ 20
0
votes
1
reply
928
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub
Shiny
Rstudio
updated 4.2 years ago by
shepherl
3.8k • written 4.2 years ago by
bwiley4
• 0
1
vote
7
replies
2.9k
views
Error with hclust
dendrogram
hclust
textanalysis
R
RStudio
3.1 years ago • updated 3.0 years ago
Abby
▴ 10
1
vote
3
replies
452
views
Pan-organism OrgDb database, Accession number translated to organism name in R
AccNo
OrgDb
convert
Organismname
RStudio
updated 5 months ago by
James W. MacDonald
65k • written 5 months ago by
j_denton
• 0
0
votes
1
reply
2.2k
views
Unable to Install packages in R
rstudio
updated 2.6 years ago by
James W. MacDonald
65k • written 2.6 years ago by
Fiona
• 0
0
votes
4
replies
3.0k
views
transformation of csv file to fasta format with biostrings and r studio
DNASeq
rstudio
fasta
Biostrings
csv
2.7 years ago
HELEN
• 0
0
votes
1
reply
755
views
Issue with installation of a package.
RStudio
flowFDA
updated 19 months ago by
Basti
▴ 780 • written 19 months ago by
kinoshamoodley
• 0
2
votes
3
replies
486
views
NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
Rstudio
cDNA
ensembldb
NCBI
4 months ago
R_Page
• 0
0
votes
1
reply
757
views
TFBSTools and readFASTA
TFBSTools
DNASeqData
readFASTA
DNA
RStudio
updated 2.5 years ago by
James W. MacDonald
65k • written 2.5 years ago by
HELEN
• 0
0
votes
1
reply
823
views
Bug: MOFA2 sets an environment variable that breaks knit in RStudio
RStudio
MOFA2
bug
knitr
updated 18 months ago by
James W. MacDonald
65k • written 18 months ago by
Kevin Coombes
▴ 430
5
votes
15
replies
11k
views
Can't able to install Seurat in Rstudio
Rstudio
Seurat
updated 2.9 years ago by
Kevin Blighe
★ 3.9k • written 2.9 years ago by
KOUSTAV
• 0
1
vote
5
replies
2.2k
views
DESeq2: All samples have 0 counts for all genes. check the counting script
DESeq2
RStudio
2.6 years ago
Sonia
• 0
0
votes
14
replies
4.1k
views
GenomeInfoDbData had non-zero exit status
DESeq2
RStudio
GenomeInfoDbData
hadnon-zeroexitstatus
updated 19 months ago by
wshao9
• 0 • written 21 months ago by
JoseR
• 0
0
votes
1
reply
990
views
DESeq2 error after installing BiocManager
scRNAseq
RStudio
DESeq2
updated 8 months ago by
ATpoint
★ 4.0k • written 8 months ago by
DrFizz
• 0
4
votes
5
replies
2.1k
views
DESeq2::plotPCA plotting error
RStudio
PCA
DESeq2
written 24 months ago by
960942
• 0
0
votes
1
reply
380
views
FALSE error when checking a pre made sample data
Rstudio
scRNAseq
DESeq2
updated 8 months ago by
ATpoint
★ 4.0k • written 8 months ago by
DrFizz
• 0
0
votes
2
replies
343
views
Help Subsetting DDS for plotPCA for contrast groups
Rstudio
plotPCA
DESeq2
5 months ago • updated 4 months ago
yee
• 0
50 results • Page
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Answer: Dominance Index for Shotgun Metagenomics Data
by
Leo Lahti
▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
pl23
• 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions
by
Michael Love
41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
by
ussarizona
▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative?
by
Michael Love
41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
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Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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