Showing : rstudio • reset
0
votes
8
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325
views
DESeq2 output used for PCA plot on R studio
DESeq2 RSTUDIO PCAtools
updated 7 days ago by ★ 1.3k • written 9 days ago by • 0
0
votes
0
replies
234
views
RN to EC Mapping Not Working for Some Nodes
RStudio ggkegg
updated 4 months ago by 65k • written 4 months ago by • 0
2
votes
3
replies
499
views
NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
Rstudio cDNA ensembldb NCBI
5 months ago R_Page • 0
0
votes
2
replies
359
views
Help Subsetting DDS for plotPCA for contrast groups
Rstudio plotPCA DESeq2
5 months ago yee • 0
1
vote
3
replies
464
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
2
votes
5
replies
789
views
Conversion between different types of bioinformatic forms. (eg. NCBI protein to Ensembl protein) in R
RStudio convert ensembldb NCBI
6 months ago • updated 5 months ago j_denton • 0
0
votes
7
replies
1.6k
views
Graphics API Version Mismatch Error with DESeq2 and ggplot2 in RStudio on Ubuntu 22.04
error RStudio ggplot2 DESeq2
updated 5 months ago by 65k • written 6 months ago by • 0
0
votes
1
reply
386
views
FALSE error when checking a pre made sample data
Rstudio scRNAseq DESeq2
updated 8 months ago by ★ 4.1k • written 8 months ago by • 0
0
votes
1
reply
1.0k
views
DESeq2 error after installing BiocManager
scRNAseq RStudio DESeq2
updated 8 months ago by ★ 4.1k • written 8 months ago by • 0
0
votes
2
replies
1.2k
views
Usinig BiocParallel package in R with M1 MAC
RStudio R M1 BiocParallel Mac
updated 16 months ago by • 0 • written 17 months ago by • 0
0
votes
1
reply
832
views
Bug: MOFA2 sets an environment variable that breaks knit in RStudio
RStudio MOFA2 bug knitr
updated 18 months ago by 65k • written 18 months ago by ▴ 430
0
votes
1
reply
763
views
Issue with installation of a package.
RStudio flowFDA
updated 19 months ago by ▴ 780 • written 19 months ago by • 0
0
votes
14
replies
4.1k
views
GenomeInfoDbData had non-zero exit status
DESeq2 RStudio GenomeInfoDbData hadnon-zeroexitstatus
updated 19 months ago by • 0 • written 22 months ago by • 0
4
votes
5
replies
2.1k
views
DESeq2::plotPCA plotting error
RStudio PCA DESeq2
written 2.0 years ago by • 0
0
votes
0
replies
1.2k
views
function GDCquery_Maf error
rstudio maftools
2.1 years ago misslubblys • 0
9
votes
11
replies
5.8k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 7 weeks ago by 3.9k • written 2.3 years ago by ▴ 40
0
votes
3
replies
1.5k
views
Reading large file (15GB) in R
R Rstudio Bioconducter statistics
updated 2.2 years ago by 21k • written 2.3 years ago by ▴ 10
0
votes
0
replies
639
views
Read the first sequence from fasta file - TFBSTool
TFBSTools FASTA RStudio
2.5 years ago HELEN • 0
0
votes
1
reply
767
views
TFBSTools and readFASTA
TFBSTools DNASeqData readFASTA DNA RStudio
updated 2.5 years ago by 65k • written 2.5 years ago by • 0
0
votes
0
replies
623
views
TFBSTools- analysis for trascriprion factors
TFBSTools RStudio R
2.5 years ago HELEN • 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
1
reply
2.2k
views
Unable to Install packages in R
rstudio
updated 2.6 years ago by 65k • written 2.6 years ago by • 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
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
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
0
votes
1
reply
842
views
Defining groups in Decipher by sequence position in the database (FASTA)
DefiningGroups RStudio DECIPHER Specificprimers
updated 3.2 years ago by ▴ 150 • written 3.2 years ago by • 0
1
vote
5
replies
4.0k
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
0
votes
1
reply
936
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub Shiny Rstudio
updated 4.2 years ago by 3.9k • written 4.2 years ago by • 0
0
votes
5
replies
1.5k
views
readTranscriptFeatures from genomation
R Rstudio Error readTranscriptFeatures genomation
updated 4.5 years ago by ▴ 20 • written 4.5 years ago by • 0
2
votes
1
reply
8.4k
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
0
votes
5
replies
1.6k
views
Using RStudio AMI with localhost
RStudio AWS AMI
4.8 years ago bio-explorer • 0
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
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 25k • written 4.9 years ago by • 0
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
5.1 years ago fatimarasool135 • 0
2
votes
4
replies
1.7k
views
make TxDb from list of genes
R maketxdbfrombiomart maketxdbfromgranges rstudio ensembl
updated 12 months ago by ▴ 10 • written 5.4 years ago by • 0
0
votes
4
replies
1.6k
views
New computer won't install DESeq2
deseq2 rstudio install error
updated 5.6 years ago by 41k • written 5.6 years ago by • 0
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
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
1
reply
1.9k
views
DeSeq2 installation on ubuntu fails
deseq2 R ubuntu bioconductor rstudio
updated 5.8 years ago by 41k • written 5.8 years ago by • 0
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
1
vote
4
replies
1.6k
views
biomaRt scan error for latest assembly when indicating version Number
biomart rstudio ensembl mart
updated 6.2 years ago by ★ 6.5k • written 6.2 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
0
votes
2
replies
3.6k
views
Error in file.choose() : file choice cancelled
package development bioconductor rstudio rmarkdown vignettes
6.5 years ago clarisbaby • 0
1
vote
2
replies
1.3k
views
Rstudio session aborts when using read.celfiles()
oligo package Rstudio fatal error microarray CEL
6.5 years ago biostR ▴ 10
0
votes
0
replies
1.6k
views
Problem with heatmap by ComplexHeatmap
complexheatmap Rstudio NOISeq
6.6 years ago Luiz • 0
0
votes
1
reply
1.9k
views
Trouble installing Bioconductor in R-studio (R version 3.3.1)
bioconductor rstudio
updated 6.8 years ago by 25k • written 6.8 years ago by • 0
1
vote
1
reply
4.9k
views
MA plot in R
rstudio r plotMA
6.9 years ago g.k • 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
1.4k
views
problem in installing flowclust
rstudio flowclust
updated 6.9 years ago by 3.9k • written 6.9 years ago by • 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 ▴ 350 • written 6.9 years ago by • 0
50 results • Page 1 of 1
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Replies
Comment: Deseq2 and Normalization of RNA sequencing data by kcarey • 0
Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …
Answer: NEED FOR NESSASORY HELP by Gordon Smyth 50k
Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…
Answer: Gene-by-sample covariates in limma by Gordon Smyth 50k
Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p- by Gordon Smyth 50k
You have discovered something that I have pointed out many times on this forum. fgsea does not implement the classic GSEA method published …
Comment: Once again a "Model matrix not full rank" by James W. MacDonald 65k
In that case both time and treatment are identical things, so choose one and go with it.
Votes
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
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