Showing : error • reset
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 6 months ago by 65k • written 6 months ago by • 0
10
votes
10
replies
6.9k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 6 weeks ago by • 0 • written 6 months ago by ▴ 10
0
votes
0
replies
284
views
proActiv - Error in estimateSizeFactorsForMatrix when using the proActiv function
proActiv error estimateSizeFactorsForMatrix
6 months ago Chris • 0
0
votes
1
reply
405
views
Problems when running GDC_prepare in R
TCGAbiolinks error GDC_prepare
6 months ago leon • 0
0
votes
3
replies
631
views
DiffBind issue with edgeR$bTagwise and DESeq2$fitType
Config DiffBind Error
updated 9 months ago by ★ 5.2k • written 9 months ago by • 0
0
votes
1
reply
479
views
Calculate RPKMs and Output proteins pass the cutoff into FASTA file ... Error in keepSeqlevels(anno, seqlevels(galn), pruning.mode = "coarse") : i…
customProDB easyrun error mm10 Mus_musculus_Data
updated 11 months ago by 65k • written 11 months ago by • 0
0
votes
0
replies
485
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
12 months ago aymanreffai • 0
0
votes
8
replies
1.2k
views
fail to annotate chromosome data to single cell object
error SingleCell annotate
updated 5 months ago by • 0 • written 14 months ago by • 0
0
votes
2
replies
549
views
Error message trying to open downloaded package
error DEP
14 months ago kcpaul168 • 0
0
votes
0
replies
553
views
DEqMS function "outputResult" reports wrong sca.adj.pval
outputresult DEqMS sca.adj.pval error p-value
18 months ago Bastian • 0
0
votes
3
replies
973
views
tximport error
error tximport
updated 20 months ago by 41k • written 20 months ago by • 0
0
votes
3
replies
2.1k
views
[ExpressionSet] Question: Error in validObject(.Object)
ExpressionSet Assay NanoString Error Data
updated 21 months ago by 65k • written 21 months ago by • 0
0
votes
7
replies
1.4k
views
Centos 7.8, custom-compiled R-4.1: iPath_1.0.0 won't install
error iPath R compilation
2.3 years ago wjb2130 • 0
0
votes
2
replies
834
views
Error in TFBSTools at SitesetList
error TFBSTools R
2.5 years ago HELEN • 0
0
votes
3
replies
888
views
bioconductor.org not reachable from EU region
error http429 server
3.0 years ago ashu.upadhyay2206 • 0
0
votes
2
replies
1.3k
views
Finding the correct version of DESeq2 for my version of R (3.6.1)
error DESeq2 Install
updated 3.1 years ago by 65k • written 3.1 years ago by • 0
1
vote
2
replies
2.9k
views
error in DESeq2 results(dds)
DESeq2 datasetfrommatrix results error
3.2 years ago james • 0
4
votes
9
replies
3.7k
views
biomaRt - getBM; Error with obtaining a dataset from getBM() function
biomaRt error getBM
updated 2.9 years ago by ★ 6.5k • written 3.2 years ago by ▴ 20
3
votes
4
replies
2.9k
views
R Error: package ‘GenomeInfoDb’ could not be loaded on MacBook
error mac DESeq2 GenomeInfoDb R
3.3 years ago • updated 3.2 years ago Dan ▴ 20
1
vote
1
reply
966
views
Errors in installing RforProteomics package
error RforProteomics Install
updated 3.4 years ago by ★ 6.5k • written 3.4 years ago by • 0
0
votes
1
reply
730
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
3.8 years ago akhaira • 0
6
votes
6
replies
1.2k
views
Suggestion for next revision of edgeR User Guide re Design matrix setup
edger error
updated 3.9 years ago by 50k • written 3.9 years ago by • 0
0
votes
14
replies
2.2k
views
annFUN error TOPGO
TOPGO annFUN error
updated 4.1 years ago by ★ 3.9k • written 4.1 years ago by • 0
0
votes
0
replies
591
views
Error on FindOptimalBinning function
bhc error
4.1 years ago pavel.granalacant • 0
0
votes
0
replies
852
views
Multicollinearity and pR2Y =0.1
opls-da error multicollinearity
4.3 years ago adriana.roca-fernandez • 0
0
votes
1
reply
998
views
boxplot Error in Bioconductor
boxplot bioconductor R error
4.4 years ago l154359 • 0
0
votes
4
replies
964
views
nucleR ERROR unable to find an inherited method for function peakDetection for signature
nucleosome peaks error Job
updated 4.4 years ago by 65k • written 4.4 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
0
votes
3
replies
803
views
Error in E-Eb Limma package
limma error E-Eb
updated 4.5 years ago by 50k • written 4.5 years ago by • 0
4
votes
7
replies
1.3k
views
bam files to hilbert curve
HilbertCurve error bamfiles GRobject
4.6 years ago adklts • 0
0
votes
1
reply
1.2k
views
Help with installation of readat package
readat error
updated 4.7 years ago by 3.9k • written 4.7 years ago by • 0
2
votes
2
replies
1.5k
views
TCGAbiolinks GDCprepare error
TCGAbiolinks GDCprepare error
updated 4.8 years ago by ▴ 270 • written 4.8 years ago by ▴ 10
0
votes
1
reply
1.7k
views
R: oligo packages install error
oligo packages error
updated 4.8 years ago by 25k • written 4.8 years ago by • 0
0
votes
0
replies
837
views
Error in parseGenBank
genbankr parseGenBank gbk error
4.8 years ago ashley.dederich • 0
2
votes
3
replies
1.0k
views
How can I overcome the error of "No residual degrees of freedom in linear model fits"?
limma microarray error
updated 4.8 years ago by ★ 1.5k • written 4.8 years ago by ▴ 80
0
votes
6
replies
4.2k
views
Error in getOneSeqFromBSgenomeMultipleSequences During singeR tutorial
error
4.9 years ago dfcarril • 0
0
votes
4
replies
1.9k
views
DESeq2 compare all_vs_all levels error
deseq2 error RNAseq
updated 4.9 years ago by ★ 1.3k • written 4.9 years ago by ▴ 30
0
votes
3
replies
967
views
Error in if (all(x <= minReadCount) & lambda <= minReadCount) { : missing value where TRUE/FALSE needed
cnmops cn.mops error
updated 4.9 years ago by 25k • written 4.9 years ago by • 0
0
votes
1
reply
1.3k
views
DiffBind dba error
DiffBind dba R error
updated 4.7 years ago by ★ 5.2k • written 4.9 years ago by • 0
0
votes
8
replies
2.5k
views
tximport command error
tx2gene txi error
updated 5.0 years ago by 65k • written 5.0 years ago by • 0
0
votes
6
replies
1.9k
views
atacseqQC error while splittin the bamfile
ATACseqQC ATAC-seq error split bam file
updated 5.0 years ago by • 0 • written 5.0 years ago by ▴ 10
2
votes
6
replies
1.5k
views
EdgeR glmTreat error
edger error
updated 5.1 years ago by 65k • written 5.1 years ago by • 0
1
vote
1
reply
1.0k
views
The query to the BioMart webservice returned an invalid result: biomaRt expected a character string of length 1
biomaRt error
updated 5.1 years ago by 65k • written 5.1 years ago by ▴ 10
0
votes
1
reply
800
views
Error in intramodularConnectivity(ADJ1, colorh1) : object 'colorh1' not found
error wgcna affymetrix data
updated 5.1 years ago by ★ 3.0k • written 5.1 years ago by • 0
2
votes
6
replies
1.9k
views
featurecounts Rsubread ERROR on exon_id
R error software error Rsubread featurecounts
updated 5.1 years ago by ★ 3.6k • written 5.1 years ago by • 0
2
votes
3
replies
3.2k
views
DESeq2- preliminary study no replicates
deseq2 replicates error DESeqDataSetFromMatrix
updated 5.1 years ago by 41k • written 5.1 years ago by • 0
1
vote
1
reply
1.1k
views
Error in getBM(c("affy_rice", "ensembl_gene_id", "entrezgene", "external_gene_name"), : could not find function "featureNames"
annotation error biomaRT affy ricedataset
updated 5.1 years ago by ★ 6.5k • written 5.1 years ago by • 0
1
vote
2
replies
2.0k
views
Errors installing mzR package
proteomics error
updated 5.1 years ago by 1.6k • written 5.1 years ago by • 0
2
votes
5
replies
3.6k
views
GDCdownload does not work
GDCdow tcgabiolinks error tcgadownload download_error
updated 5.4 years ago by ▴ 260 • written 5.4 years ago by • 0
0
votes
1
reply
756
views
Linking PhosMap to issue number: 953
error github package contribution
updated 5.4 years ago by 25k • written 5.4 years ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2 by Kim • 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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