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7
votes
5
replies
467
views
Normalise to a housekeeping gene in DESEq2
DESeq2 housekeeping R RNASeqData
10 months ago • updated 9 months ago ecg1g15 • 0
5
votes
6
replies
414
views
WHat is the difference between DEG and TopVarGenes in DESEq2?
DESeq2 R RNASeqR
9 months ago ecg1g15 • 0
4
votes
8
replies
548
views
Is there a different way to generate a tree for phyloseq object
r dada2 Bioconductor
updated 4 months ago by ▴ 980 • written 4 months ago by ▴ 10
4
votes
2
replies
349
views
Error Loading "org.Dm.eg.db" package
r org.Dm.eg.db
updated 5 months ago by ▴ 80 • written 5 months ago by ▴ 20
3
votes
6
replies
2.9k
views
Affymetrix miRNA 4.0 Normalization and Analysis
R Limma microarray miRNA
updated 4 months ago by ▴ 10 • written 5.6 years ago by ▴ 80
2
votes
2
replies
86
views
DiffBind (Error in if (DBA$config$parallelPackage))
parallel R DiffBind
4 weeks ago • updated 29 days ago eggrandio • 0
2
votes
4
replies
560
views
R Error: package ‘GenomeInfoDb’ could not be loaded on MacBook
error mac DESeq2 GenomeInfoDb R
8 months ago • updated 7 months ago Dan ▴ 10
2
votes
6
replies
252
views
How can I use geom_label_repel with EnhancedVolcano?
ggrepel RNASeq R EnhancedVolcano
9 weeks ago • updated 8 weeks ago Loren ▴ 10
2
votes
3
replies
247
views
DESeq2 with two continuous variable in a design
DESeq2 RNASeq R design
updated 10 weeks ago by 34k • written 12 weeks ago by • 0
2
votes
4
replies
2.1k
views
How to convert large gene counts data into matrix?
R singlecell bioinformatics seurat
updated 7 months ago by • 0 • written 2.2 years ago by • 0
2
votes
3
replies
209
views
Compute fgsea with my own database with R version 4.0.2
R fgsea
updated 4 months ago by ▴ 200 • written 4 months ago by • 0
2
votes
2
replies
173
views
How to overcome issue linked to loading big R object
minfi R methylation
4 months ago Federica ▴ 10
2
votes
6
replies
823
views
Cannot download “EBImage” library in R
R EBImage
written 10 months ago by • 0
2
votes
4
replies
303
views
Bioconductor package development
package R software development
updated 11 months ago by 25k • written 11 months ago by • 0
1
vote
4
replies
323
views
Need help in running GO analysis
RNASeq R
4 months ago Rishav ▴ 20
1
vote
7
replies
411
views
Error with hclust
dendrogram hclust textanalysis R RStudio
5 months ago Abby ▴ 10
1
vote
6
replies
318
views
How to create geneselectionfunction in TopGO: Error in .local(.Object, ...) : allGenes should be a factor or a numeric vector
R TopGO Geneenrichment
updated 12 months ago by 58k • written 12 months ago by • 0
1
vote
3
replies
251
views
Troubles implementing LIMMA for paired samples (before/after treatment) comparaisons
GeneExpression R limma MultipleComparison
updated 9 months ago by 58k • written 9 months ago by • 0
1
vote
1
reply
153
views
Error in the UcscTrack() in package "Gviz"
DMR Methylation R Gviz
updated 4 months ago by ▴ 700 • written 4 months ago by • 0
1
vote
2
replies
205
views
Incomplete GWAS Catalog Data from makeCurrentGwascat()
gwascat r
8 months ago anailis • 0
1
vote
4
replies
291
views
Failing to install DEP package. Some strange error.
R Bioconductor Install DEP
6 months ago tpm • 0
1
vote
5
replies
1.2k
views
Error in stattest function
R rnaseq Ballgown
updated 4 months ago by • 0 • written 3.7 years ago by • 0
1
vote
7
replies
190
views
How to get annotations for all genes that overlap a region with annotatePeak
txdb R annotatation
10 weeks ago pegah.taklifi ▴ 30
1
vote
3
replies
524
views
Convert mouse gene ids to hamster gene ids
biomart R ensembl
updated 5 months ago by 3.4k • written 14 months ago by • 0
1
vote
2
replies
176
views
Correct way to make multiple comparisons on DESeq2?
DESeq DESeq2 R
23 days ago • updated 9 days ago jbnrodriguez • 0
1
vote
8
replies
1.7k
views
DESeq2: Continuous and discreate variables in the design
deseq2 R rna-seq design
updated 8 months ago by 34k • written 22 months ago by • 0
1
vote
3
replies
164
views
How to write a script for identifying associate gene id
bash r bingo
12 weeks ago • updated 8 weeks ago abhisekdey061 • 0
1
vote
3
replies
166
views
Using block and design together in Diffbind 3.0?
DiffBind R ATACSeq
updated 9 weeks ago by ▴ 70 • written 9 weeks ago by • 0
0
votes
0
replies
58
views
How to assign custom colour codes for Multiple sequence alignment (MSA)?
Phylogenetics genomes R MultipleSequenceAlignment Bioconductor
5 weeks ago • updated 4 weeks ago K. • 0
0
votes
0
replies
171
views
R: STRINGdb, from get_enrichment() function how to get background gene list that are related to pathways?
R STRINGdb
3 months ago choijamts • 0
0
votes
0
replies
188
views
Job: Biostatistics/Bioinformatics Research Scientist at UNC Charlotte
singlecellRNA-Seq pathview statistics R
6 months ago • updated 4 months ago Luo Weijun ★ 1.5k
0
votes
0
replies
63
views
EnrichGO
R enrichplot
updated 6 weeks ago by 3.4k • written 6 weeks ago by • 0
0
votes
1
reply
117
views
python and R
snpeff python tophat r RNAseq123
updated 8 weeks ago by 3.4k • written 8 weeks ago by • 0
0
votes
5
replies
11k
views
package DESeq2 installation with R.
deseq2 R package installation
updated 3 months ago by 34k • written 3.5 years ago by • 0
0
votes
0
replies
1.2k
views
Job: Postdoc and PhD student in Bioinformatics/Biostatistics
genomics NGS R genetics statistics
3.2 years ago • updated 10 months ago Luo Weijun ★ 1.5k
0
votes
11
replies
1.8k
views
Remove NaN from a list or replace NaN with a value.
R meta-analysis
updated 5 weeks ago by • 0 • written 2.9 years ago by ▴ 10
0
votes
0
replies
256
views
Job: Bioinformatics Developer / Computational Biologist
bioinformatics rna-seq shiny apps R algorithm development Job
11 months ago mmartin ▴ 20
0
votes
4
replies
202
views
extract TCGA barcodes and sample_type information from uuids
GenomicDataCommons R
updated 5 weeks ago by ▴ 40 • written 19 months ago by ▴ 40
0
votes
5
replies
510
views
Program not properly installed/program not accessible by system
R decipher
updated 6 months ago by ▴ 150 • written 17 months ago by • 0
0
votes
1
reply
224
views
Importing Newick trees in Cytoscape by conversion to igraph via RCy3
RCy3 Cytoscape R Newick Bioconductor
updated 9 months ago by • 0 • written 14 months ago by • 0
0
votes
1
reply
263
views
non-native GO annotation cannot be successfully introduced into Goseq
goseq rnaseq r
updated 11 months ago by 58k • written 11 months ago by • 0
0
votes
3
replies
510
views
Error in DESeqDataSet(se, design = design, ignoreRank) : counts matrix should be numeric, currently it has mode : logical
R DESeq2
10 months ago Ricard Lambea • 0
0
votes
1
reply
211
views
I am using the DEP package example dataset, and I am getting this error on: plot_frequency(data_se)
DEP R Bioconductor Plot
updated 10 months ago by 2.8k • written 10 months ago by • 0
0
votes
0
replies
217
views
Job: Biostatistics/Bioinformatics Research Scientist at UNC Charlotte
R statistics pathview singlecellRNA-Seq
10 months ago • updated 6 months ago Luo Weijun ★ 1.5k
0
votes
2
replies
753
views
Add selected row names on pheatmap
R pheatmap
updated 9 months ago by ▴ 850 • written 9 months ago by • 0
0
votes
2
replies
248
views
Add ticks to scale_x_flowjo_biexp()?
R CytoML ggycto
updated 9 months ago by ★ 1.3k • written 9 months ago by • 0
0
votes
1
reply
194
views
Trouble Loading Data into Champ
loaddata ChAMPdata champload R ChAMP
updated 7 months ago by ▴ 150 • written 7 months ago by • 0
0
votes
1
reply
341
views
plotSex error message
minfiData plotsex minfi minfiDataEPIC r
updated 7 months ago by • 0 • written 7 months ago by • 0
0
votes
2
replies
239
views
Error in library(oligo) : package or namespace load failed for ‘oligoClasses’
R oligoClasses Oligoclass Bioconductor Oligo
updated 6 months ago by 25k • written 6 months ago by • 0
0
votes
1
reply
361
views
Can you colour dendrogram branch clusters in pheatmap?
R heatmaps pheatmap
updated 6 months ago by 3.4k • written 6 months ago by ▴ 10
50 results • Page 1 of 1
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Comment: GenomicScores package: availableGScores and getGScores functions not working by Robert Castelo ★ 2.7k
hi, Indeed you were using an outdated version of the package. Regarding how to install current release version, please read first carefull…
Answer: Unable to install Bioconductor packages by shepherl 2.8k
This normally occurs when R was installed with a different account or an admin account. Unless on this account you won't be able to update…
Comment: GenomicScores package: availableGScores and getGScores functions not working by nattzy94 • 0
I tried to install the latest version of GenomicScores (2.4.0) by downloading the tar.gz and running `install.packages('GenomicScores_2.4.0…
Comment: GenomicScores package: availableGScores and getGScores functions not working by nattzy94 • 0
Thanks for the quick response. Below is my sessionInfo R version 3.6.2 (2019-12-12) Platform: x86_64-apple-darwin15.6.0 (64-bit) …
Answer: GenomicScores package: availableGScores and getGScores functions not working by Robert Castelo ★ 2.7k
hi, At this moment (9:30am CET) I can't reproduce this error with the current release version of the package. I have executed the follow…
Votes
Comment: Extracting normalized counts in MEDIPS
Comment: "full model matrix is less than full rank"
A: Extracting normalized counts in MEDIPS
Answer: "full model matrix is less than full rank"
Comment: Unique GPos taking into account mcols
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