Showing : RSTUDIO • reset
9
votes
11
replies
5.7k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 6 weeks ago by 3.8k • written 2.2 years ago by ▴ 40
5
votes
15
replies
11k
views
Can't able to install Seurat in Rstudio
Rstudio Seurat
updated 2.9 years ago by ★ 3.9k • written 2.9 years ago by • 0
4
votes
5
replies
2.0k
views
DESeq2::plotPCA plotting error
RStudio PCA DESeq2
written 24 months ago by • 0
3
votes
8
replies
26k
views
"Error in readRDS(file) : unknown input format" appearing every time starting Rstudio after BiocUpgrade
BiocUpgrade Rstudio Bioconductor R3.2.2
8.4 years ago svlachavas ▴ 830
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
3
votes
6
replies
1.8k
views
Integer overflow issue with ChIPQC
ChIPQC Rstudio
updated 4.8 years ago by 25k • written 4.8 years ago by ▴ 30
3
votes
7
replies
4.5k
views
goseq code after DESeq2 -NO IDEA!
goseq DESEQ2 RSTUDIO CODE
updated 8.5 years ago by ★ 13k • written 8.5 years ago by ▴ 10
2
votes
3
replies
477
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
2
votes
1
reply
8.3k
views
Error: status was 'SSL connect error'
bioconductor proxy macOS R RStudio
updated 4.5 years ago by 25k • written 4.5 years ago by ▴ 20
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 ▴ 650 • written 7.0 years ago by • 0
2
votes
4
replies
1.7k
views
make TxDb from list of genes
R maketxdbfrombiomart maketxdbfromgranges rstudio ensembl
updated 12 months ago by • 0 • written 5.4 years ago by • 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 25k • written 7.2 years ago by • 0
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 ★ 8.2k • written 8.6 years ago by ▴ 830
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 65k • written 5.7 years ago by • 0
2
votes
4
replies
1.3k
views
R session terminates when trying to load affycoretools package
affycoretools Rstudio fatal error
updated 6.2 years ago by 65k • written 6.2 years ago by ▴ 10
2
votes
18
replies
3.1k
views
edgeR: processAmplicons crashes with large number of hairpins
edger processamplicons rstudio
updated 8.9 years ago by ★ 28k • written 8.9 years ago by • 0
2
votes
5
replies
751
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
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
1
vote
8
replies
2.7k
views
DESeq2/SummarizedExperiment RStudio shows Object With Null Pointer
deseq2 null summarizedexperiment rstudio
updated 4.8 years ago by 25k • written 4.8 years ago by • 0
1
vote
3
replies
3.5k
views
Problem using display() function on RStudio
display rstudio annotationhub
updated 8.6 years ago by 65k • written 8.6 years ago by ▴ 10
1
vote
3
replies
23k
views
Converting first column to rownames
rstudio
8.2 years ago John ▴ 30
1
vote
1
reply
4.9k
views
MA plot in R
rstudio r plotMA
6.9 years ago g.k • 0
1
vote
2
replies
1.3k
views
Rstudio session aborts when using read.celfiles()
oligo package Rstudio fatal error microarray CEL
6.4 years ago biostR ▴ 10
1
vote
4
replies
1.6k
views
biomaRt scan error for latest assembly when indicating version Number
biomart rstudio ensembl mart
updated 6.1 years ago by ★ 6.5k • written 6.2 years ago by • 0
1
vote
5
replies
3.9k
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 3.4 years ago by ★ 11k • written 3.4 years ago by • 0
1
vote
7
replies
2.8k
views
Error with hclust
dendrogram hclust textanalysis R RStudio
3.1 years ago • updated 3.0 years ago Abby ▴ 10
1
vote
3
replies
444
views
Pan-organism OrgDb database, Accession number translated to organism name in R
AccNo OrgDb convert Organismname RStudio
updated 5 months ago by 65k • written 5 months ago by • 0
0
votes
2
replies
1.1k
views
Problem with cummeRbund
rstudio cummerbund
7.1 years ago sanathoi.guru • 0
0
votes
0
replies
1.1k
views
Rstudio crashes when running monocole
monocole single-cell rstudio
7.0 years ago Assa Yeroslaviz ★ 1.5k
0
votes
4
replies
3.1k
views
Impossible to use goseq package - problem with geneLenDataBase
goseq geneLenDataBase bioclite rstudio
updated 8.5 years ago by 25k • written 8.5 years ago by ▴ 10
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 ▴ 350 • written 6.9 years ago by • 0
0
votes
4
replies
1.4k
views
problem in installing flowclust
rstudio flowclust
updated 6.9 years ago by 3.8k • written 6.9 years ago by • 0
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
4
replies
1.6k
views
New computer won't install DESeq2
deseq2 rstudio install error
updated 5.5 years ago by 41k • written 5.5 years ago by • 0
0
votes
1
reply
1.9k
views
Trouble installing Bioconductor in R-studio (R version 3.3.1)
bioconductor rstudio
updated 6.7 years ago by 25k • written 6.7 years ago by • 0
0
votes
0
replies
1.5k
views
Problem with heatmap by ComplexHeatmap
complexheatmap Rstudio NOISeq
6.6 years ago Luiz • 0
0
votes
2
replies
44
views
DESeq2 output used for PCA plot on R studio
DESeq2 RSTUDIO PCAtools
12 hours ago • updated 31 minutes ago Aaliya • 0
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
1
reply
378
views
FALSE error when checking a pre made sample data
Rstudio scRNAseq DESeq2
updated 8 months ago by ★ 4.0k • written 8 months ago by • 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
0
replies
1.0k
views
Running ASpli on R results in "Error: vector memory exhausted (limit reached?)"
aspli rstudio
5.9 years ago arphatak • 0
0
votes
1
reply
1.2k
views
Install Bioconductor package locally/temporarily
R rstudio package installation
updated 5.7 years ago by 25k • written 5.7 years ago by ▴ 20
0
votes
0
replies
1.3k
views
Error with R package RontoTools regarding administrator issues downloading updated KEGG data
ROntoTools Rstudio bioconductor administratorIssues pathway analysis
8.6 years ago svlachavas ▴ 830
0
votes
9
replies
2.4k
views
is AClust package still available?
Aclust Aclustering Rstudio Clusters
updated 8.7 years ago by ▴ 40 • written 8.7 years ago by ▴ 10
0
votes
0
replies
1.7k
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
5.0 years ago fatimarasool135 • 0
0
votes
3
replies
2.1k
views
Getting different results with DESeq2
deseq2 results rstudio
updated 8.7 years ago by 41k • written 8.7 years ago by ▴ 10
0
votes
5
replies
1.6k
views
Using RStudio AMI with localhost
RStudio AWS AMI
4.8 years ago bio-explorer • 0
0
votes
20
replies
6.1k
views
SummarizeOverlaps in R
summarizeoverlaps Bam rstudio
updated 8.8 years ago by ▴ 90 • written 8.8 years ago by ▴ 10
0
votes
5
replies
1.5k
views
readTranscriptFeatures from genomation
R Rstudio Error readTranscriptFeatures genomation
updated 4.4 years ago by ▴ 20 • written 4.4 years ago by • 0
0
votes
1
reply
919
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub Shiny Rstudio
updated 4.1 years ago by 3.8k • written 4.1 years ago by • 0
50 results • Page 1 of 1
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Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0
How am i making the data? I am using the DESeq2 output data which I had generated
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq by Michael Love 41k
Sounds reasonable. For ranking genes, you could choose those with low decay rate but removing thoses where it is indistinguishable from …
Answer: Citation for edgeR user guide by Gordon Smyth 50k
Thanks for thinking about how to cite edgeR. Citations are indeed the main way by which the edgeR authors get credit for their work. The Us…
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You are just making up data? What is the point of this exercise?
Comment: How to retrieve gene ontology GO class? by James W. MacDonald 65k
What do you mean by 'the information'? Do you have things in particular that you want?
Votes
Answer: Citation for edgeR user guide
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
Comment: Trying to use enrichGO
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