Showing : RStudio • reset
0
votes
1
reply
91
views
Unable to Install packages in R
rstudio
updated 3 days ago by 58k • written 3 days ago by • 0
0
votes
4
replies
134
views
transformation of csv file to fasta format with biostrings and r studio
DNASeq rstudio fasta Biostrings csv
24 days ago • updated 23 days ago HELEN • 0
5
votes
15
replies
1.1k
views
Can't able to install Seurat in Rstudio
Rstudio Seurat
updated 3 months ago by 3.4k • written 3 months ago by • 0
1
vote
7
replies
398
views
Error with hclust
dendrogram hclust textanalysis R RStudio
5 months ago • updated 4 months ago Abby ▴ 10
0
votes
1
reply
151
views
Defining groups in Decipher by sequence position in the database (FASTA)
DefiningGroups RStudio DECIPHER Specificprimers
updated 6 months ago by ▴ 150 • written 7 months ago by • 0
1
vote
5
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415
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 9 months ago by 11k • written 9 months ago by • 0
0
votes
1
reply
169
views
AnnotationHub display() gives JavaScript Alert and DataTables warning
AnnotationHub Shiny Rstudio
updated 18 months ago by 2.8k • written 18 months ago by • 0
0
votes
5
replies
355
views
readTranscriptFeatures from genomation
R Rstudio Error readTranscriptFeatures genomation
updated 22 months ago by ▴ 20 • written 22 months ago by • 0
2
votes
1
reply
1.3k
views
Error: status was 'SSL connect error'
bioconductor proxy macOS R RStudio
updated 23 months ago by 25k • written 23 months ago by ▴ 20
0
votes
5
replies
449
views
Using RStudio AMI with localhost
RStudio AWS AMI
2.2 years ago bio-explorer • 0
3
votes
6
replies
866
views
Integer overflow issue with ChIPQC
ChIPQC Rstudio
updated 2.2 years ago by 25k • written 2.2 years ago by ▴ 30
1
vote
8
replies
1.6k
views
DESeq2/SummarizedExperiment RStudio shows Object With Null Pointer
deseq2 null summarizedexperiment rstudio
updated 2.2 years ago by 25k • written 2.2 years ago by • 0
0
votes
0
replies
965
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
2.4 years ago fatimarasool135 • 0
2
votes
3
replies
446
views
make TxDb from list of genes
R maketxdbfrombiomart maketxdbfromgranges rstudio ensembl
2.8 years ago rtwest • 0
0
votes
4
replies
741
views
New computer won't install DESeq2
deseq2 rstudio install error
updated 2.9 years ago by 34k • written 2.9 years ago by • 0
2
votes
2
replies
1.9k
views
ColSideColors set by rows for heatmap.2 in RStudio
rstudio heatmap.2
updated 3.1 years ago by 58k • written 3.1 years ago by • 0
0
votes
1
reply
458
views
Install Bioconductor package locally/temporarily
R rstudio package installation
updated 3.1 years ago by 25k • written 3.1 years ago by • 0
0
votes
1
reply
951
views
DeSeq2 installation on ubuntu fails
deseq2 R ubuntu bioconductor rstudio
updated 3.2 years ago by 34k • written 3.2 years ago by • 0
0
votes
0
replies
524
views
Running ASpli on R results in "Error: vector memory exhausted (limit reached?)"
aspli rstudio
3.3 years ago arphatak • 0
1
vote
4
replies
947
views
biomaRt scan error for latest assembly when indicating version Number
biomart rstudio ensembl mart
updated 3.5 years ago by ★ 5.1k • written 3.6 years ago by • 0
2
votes
4
replies
569
views
R session terminates when trying to load affycoretools package
affycoretools Rstudio fatal error
updated 3.5 years ago by 58k • written 3.5 years ago by ▴ 10
0
votes
2
replies
1.7k
views
Error in file.choose() : file choice cancelled
package development bioconductor rstudio rmarkdown vignettes
3.8 years ago clarisbaby • 0
1
vote
2
replies
683
views
Rstudio session aborts when using read.celfiles()
oligo package Rstudio fatal error microarray CEL
3.8 years ago biostR ▴ 10
0
votes
0
replies
740
views
Problem with heatmap by ComplexHeatmap
complexheatmap Rstudio NOISeq
4.0 years ago Luiz • 0
0
votes
1
reply
1.4k
views
Trouble installing Bioconductor in R-studio (R version 3.3.1)
bioconductor rstudio
updated 4.1 years ago by 25k • written 4.1 years ago by • 0
1
vote
1
reply
3.6k
views
MA plot in R
rstudio r plotMA
4.3 years ago g.k • 0
0
votes
3
replies
1.5k
views
error installing cummeRbund in R studio (Windows desktop)
Rstudio cummerbund error
4.3 years ago mszskb • 0
0
votes
4
replies
771
views
problem in installing flowclust
rstudio flowclust
updated 4.3 years ago by 2.8k • written 4.3 years ago by • 0
0
votes
1
reply
537
views
can a function outliers be applied for a flowframe?
bioconductor flow cytometry rstudio
updated 4.3 years ago by ▴ 270 • written 4.3 years ago by • 0
2
votes
4
replies
768
views
RStudio quits unexpectedly while running DiffBind on R 3.4.0
software error diffbind rstudio abort quit
updated 4.4 years ago by ▴ 640 • written 4.4 years ago by • 0
0
votes
0
replies
590
views
Rstudio crashes when running monocole
monocole single-cell rstudio
4.4 years ago Assa Yeroslaviz ★ 1.5k
0
votes
2
replies
657
views
Problem with cummeRbund
rstudio cummerbund
4.5 years ago sanathoi.guru • 0
2
votes
1
reply
2.5k
views
Reading fasta file with multiple sequences
multiple sequences bioconductor rstudio seqinr
updated 4.6 years ago by 25k • written 4.6 years ago by • 0
3
votes
3
replies
12k
views
Error in Knit R Markdown document (could not find function "Biocexptpkg")
rmarkdown rstudio knitr
4.9 years ago Jon Bråte ▴ 180
0
votes
4
replies
1.4k
views
Unable to install Rcpp package for genefo
Rcpp genefo linux linux mint Rstudio
updated 5.1 years ago by • 0 • written 5.1 years ago by • 0
0
votes
0
replies
1.3k
views
Read Graphviz file .dot in R
r rstudio rgraphviz graphviz .dot
5.3 years ago pleaseteachmehowtodoit • 0
0
votes
2
replies
1.2k
views
Gene symbol annotation not converted for intergenic SNPs with multiple genes
annotation variantannotation rstudio
updated 5.5 years ago by ★ 6.7k • written 5.5 years ago by • 0
0
votes
1
reply
685
views
What preprocessing needs to be done on the Experiment datasets
colon rstudio golubesets
updated 5.5 years ago by 58k • written 5.5 years ago by • 0
0
votes
2
replies
671
views
Error viewing the data set Golub_Merge
golubEsets rstudio
updated 5.5 years ago by 58k • written 5.5 years ago by • 0
1
vote
3
replies
19k
views
Converting first column to rownames
rstudio
5.5 years ago John ▴ 30
0
votes
5
replies
2.0k
views
New Version of CummeRbund?
cummerbund rstudio
5.6 years ago lreiter • 0
3
votes
8
replies
17k
views
"Error in readRDS(file) : unknown input format" appearing every time starting Rstudio after BiocUpgrade
BiocUpgrade Rstudio Bioconductor R3.2.2
5.8 years ago svlachavas ▴ 780
3
votes
7
replies
3.0k
views
goseq code after DESeq2 -NO IDEA!
goseq DESEQ2 RSTUDIO CODE
updated 5.9 years ago by 13k • written 5.9 years ago by ▴ 10
0
votes
4
replies
2.2k
views
Impossible to use goseq package - problem with geneLenDataBase
goseq geneLenDataBase bioclite rstudio
updated 5.9 years ago by 25k • written 5.9 years ago by ▴ 10
0
votes
3
replies
727
views
GenomiFeatures is not available for R version 3.2.1
GenomiFeatures rversion3.2.1 3.0 rstudio
6.0 years ago serpalma.v ▴ 60
0
votes
0
replies
727
views
Error with R package RontoTools regarding administrator issues downloading updated KEGG data
ROntoTools Rstudio bioconductor administratorIssues pathway analysis
6.0 years ago svlachavas ▴ 780
2
votes
5
replies
4.3k
views
Update R in Rstudio to specific version 3.2.1 in windows
updateR rstudio Rversion3.2.1
updated 6.0 years ago by ★ 8.2k • written 6.0 years ago by ▴ 780
1
vote
3
replies
1.4k
views
Problem using display() function on RStudio
display rstudio annotationhub
updated 6.0 years ago by 58k • written 6.0 years ago by ▴ 10
0
votes
9
replies
1.5k
views
is AClust package still available?
Aclust Aclustering Rstudio Clusters
updated 6.1 years ago by ▴ 30 • written 6.1 years ago by ▴ 10
0
votes
3
replies
1.5k
views
Getting different results with DESeq2
deseq2 results rstudio
updated 6.1 years ago by 34k • written 6.1 years ago by ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Answer: Error in makeTxDbFromGFF(txomeInfo$gtf) by Michael Love 34k
I see that tximeta found a linked transcriptome. Can you show this part of your code as well? How did you create the `linkedTxome`?
Comment: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi by Gordon Smyth 43k
You need to start by doing an ordinary paired analysis.
Comment: Recalculated abundance data output table with DEseq2 by Michael Love 34k
Yes, DESeq() then results(). When you print the table it will say MLE. No we don’t have a function to do that.
Comment: Recalculated abundance data output table with DEseq2 by michael.morash • 0
Thanks for getting back to me so quickly. The final comparison we are looking to report are the effects of filtering out low count genes us…
Comment: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi by Field -Ye • 0
Hi Professor Smyth, Thank you for pointing me to your previous publication. I went through the verbal part and found you did pursue the DG…
Votes
Answer: Degust: what normalization method does it use
Answer: ylim and xlim in Enhanced Volcano
Answer: EdgeR, tumor normal pair, no replicatie but multiple patients, to focus on indi
Error in .rowNamesDF<-(x, value = value) :duplicate row.names are not allowed DESeq2
Comment: How to build a GRangesList where each GRanges element is a CDS coordinate of gen
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