Showing : Error • reset
0
votes
7
replies
3.4k
views
Graphics API Version Mismatch Error with DESeq2 and ggplot2 in RStudio on Ubuntu 22.04
error RStudio ggplot2 DESeq2
updated 16 months ago by 68k • written 16 months ago by • 0
12
votes
10
replies
14k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 11 months ago by • 0 • written 16 months ago by ▴ 20
0
votes
0
replies
508
views
proActiv - Error in estimateSizeFactorsForMatrix when using the proActiv function
proActiv error estimateSizeFactorsForMatrix
16 months ago Chris • 0
0
votes
1
reply
1.0k
views
Problems when running GDC_prepare in R
TCGAbiolinks error GDC_prepare
16 months ago leon • 0
0
votes
3
replies
996
views
DiffBind issue with edgeR$bTagwise and DESeq2$fitType
Config DiffBind Error
updated 19 months ago by ★ 5.2k • written 19 months ago by • 0
0
votes
17
replies
4.2k
views
What causes this DESeq2 error at "fitting model and testing"?
deseq2 differential expression error
updated 20 months ago by • 0 • written 7.4 years ago by • 0
0
votes
1
reply
736
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 22 months ago by 68k • written 22 months ago by • 0
0
votes
0
replies
743
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
23 months ago • updated 22 months ago aymanreffai • 0
0
votes
8
replies
1.6k
views
fail to annotate chromosome data to single cell object
error SingleCell annotate
updated 15 months ago by • 0 • written 24 months ago by • 0
0
votes
2
replies
819
views
Error message trying to open downloaded package
error DEP
2.1 years ago kcpaul168 • 0
0
votes
0
replies
794
views
DEqMS function "outputResult" reports wrong sca.adj.pval
outputresult DEqMS sca.adj.pval error p-value
2.4 years ago Bastian • 0
0
votes
3
replies
1.3k
views
tximport error
error tximport
updated 2.5 years ago by 43k • written 2.5 years ago by • 0
0
votes
3
replies
2.9k
views
[ExpressionSet] Question: Error in validObject(.Object)
ExpressionSet Assay NanoString Error Data
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
0
votes
7
replies
1.8k
views
Centos 7.8, custom-compiled R-4.1: iPath_1.0.0 won't install
error iPath R compilation
3.2 years ago • updated 3.1 years ago wjb2130 • 0
0
votes
2
replies
1.1k
views
Error in TFBSTools at SitesetList
error TFBSTools R
3.3 years ago HELEN • 0
4
votes
9
replies
4.4k
views
biomaRt - getBM; Error with obtaining a dataset from getBM() function
biomaRt error getBM
updated 3.8 years ago by ★ 6.6k • written 4.0 years ago by ▴ 20
0
votes
3
replies
1.1k
views
bioconductor.org not reachable from EU region
error http429 server
3.9 years ago ashu.upadhyay2206 • 0
0
votes
2
replies
1.8k
views
Finding the correct version of DESeq2 for my version of R (3.6.1)
error DESeq2 Install
updated 4.0 years ago by 68k • written 4.0 years ago by • 0
1
vote
2
replies
3.5k
views
error in DESeq2 results(dds)
DESeq2 datasetfrommatrix results error
4.0 years ago james • 0
3
votes
4
replies
3.4k
views
R Error: package ‘GenomeInfoDb’ could not be loaded on MacBook
error mac DESeq2 GenomeInfoDb R
4.2 years ago • updated 4.1 years ago Dan ▴ 20
1
vote
1
reply
1.2k
views
Errors in installing RforProteomics package
error RforProteomics Install
updated 4.3 years ago by ★ 6.6k • written 4.3 years ago by • 0
0
votes
1
reply
927
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
4.7 years ago akhaira • 0
6
votes
6
replies
1.6k
views
Suggestion for next revision of edgeR User Guide re Design matrix setup
edger error
updated 4.8 years ago by 52k • written 4.8 years ago by • 0
0
votes
14
replies
3.0k
views
annFUN error TOPGO
TOPGO annFUN error
updated 4.9 years ago by ★ 4.0k • written 4.9 years ago by • 0
0
votes
0
replies
803
views
Error on FindOptimalBinning function
bhc error
5.0 years ago pavel.granalacant • 0
0
votes
0
replies
1.1k
views
Multicollinearity and pR2Y =0.1
opls-da error multicollinearity
5.1 years ago adriana.roca-fernandez • 0
0
votes
1
reply
1.3k
views
boxplot Error in Bioconductor
boxplot bioconductor R error
5.2 years ago l154359 • 0
0
votes
4
replies
1.2k
views
nucleR ERROR unable to find an inherited method for function peakDetection for signature
nucleosome peaks error Job
updated 5.2 years ago by 68k • written 5.2 years ago by • 0
0
votes
5
replies
2.1k
views
readTranscriptFeatures from genomation
R Rstudio Error readTranscriptFeatures genomation
updated 5.3 years ago by ▴ 20 • written 5.3 years ago by • 0
0
votes
3
replies
1.1k
views
Error in E-Eb Limma package
limma error E-Eb
updated 5.4 years ago by 52k • written 5.4 years ago by • 0
4
votes
7
replies
1.6k
views
bam files to hilbert curve
HilbertCurve error bamfiles GRobject
5.4 years ago adklts • 0
0
votes
6
replies
9.2k
views
Rhtslib - install error
Rhtslib installation error zlib
updated 5.4 years ago by • 0 • written 6.4 years ago by • 0
0
votes
1
reply
1.7k
views
DiffBind dba error
DiffBind dba R error
updated 5.5 years ago by ★ 5.2k • written 5.7 years ago by • 0
0
votes
1
reply
1.5k
views
Help with installation of readat package
readat error
updated 5.6 years ago by 4.1k • written 5.6 years ago by • 0
2
votes
2
replies
1.9k
views
TCGAbiolinks GDCprepare error
TCGAbiolinks GDCprepare error
updated 5.6 years ago by ▴ 270 • written 5.6 years ago by ▴ 10
0
votes
1
reply
2.4k
views
R: oligo packages install error
oligo packages error
updated 5.7 years ago by 25k • written 5.7 years ago by • 0
0
votes
0
replies
1.0k
views
Error in parseGenBank
genbankr parseGenBank gbk error
5.7 years ago ashley.dederich • 0
2
votes
3
replies
1.3k
views
How can I overcome the error of "No residual degrees of freedom in linear model fits"?
limma microarray error
updated 5.7 years ago by ★ 1.6k • written 5.7 years ago by ▴ 80
0
votes
6
replies
4.9k
views
Error in getOneSeqFromBSgenomeMultipleSequences During singeR tutorial
error
5.7 years ago dfcarril • 0
0
votes
4
replies
2.2k
views
DESeq2 compare all_vs_all levels error
deseq2 error RNAseq
updated 5.7 years ago by ★ 1.4k • written 5.7 years ago by ▴ 30
0
votes
3
replies
1.2k
views
Error in if (all(x <= minReadCount) & lambda <= minReadCount) { : missing value where TRUE/FALSE needed
cnmops cn.mops error
updated 5.7 years ago by 25k • written 5.7 years ago by • 0
0
votes
6
replies
2.3k
views
atacseqQC error while splittin the bamfile
ATACseqQC ATAC-seq error split bam file
updated 5.8 years ago by • 0 • written 5.8 years ago by ▴ 10
0
votes
8
replies
3.1k
views
tximport command error
tx2gene txi error
updated 5.8 years ago by 68k • written 5.8 years ago by • 0
2
votes
6
replies
1.9k
views
EdgeR glmTreat error
edger error
updated 5.9 years ago by 68k • written 5.9 years ago by • 0
1
vote
1
reply
1.2k
views
The query to the BioMart webservice returned an invalid result: biomaRt expected a character string of length 1
biomaRt error
updated 5.9 years ago by 68k • written 5.9 years ago by ▴ 10
0
votes
1
reply
993
views
Error in intramodularConnectivity(ADJ1, colorh1) : object 'colorh1' not found
error wgcna affymetrix data
updated 5.9 years ago by ★ 3.0k • written 5.9 years ago by • 0
2
votes
6
replies
2.4k
views
featurecounts Rsubread ERROR on exon_id
R error software error Rsubread featurecounts
updated 5.9 years ago by ★ 3.6k • written 5.9 years ago by • 0
2
votes
3
replies
3.6k
views
DESeq2- preliminary study no replicates
deseq2 replicates error DESeqDataSetFromMatrix
updated 5.9 years ago by 43k • written 5.9 years ago by • 0
1
vote
1
reply
1.3k
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 5.9 years ago by ★ 6.6k • written 5.9 years ago by • 0
1
vote
2
replies
2.6k
views
Errors installing mzR package
proteomics error
updated 6.0 years ago by 1.6k • written 6.0 years ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k
If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…
Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0
why aren't there any answers?
Comment: Too many significant genes when integrating gtex and tcga by Jane • 0
I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…
Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180
Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…
Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k
No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…
Votes
A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct
Answer: Group-specific condition effects with individuals nested: matrix is not full ra
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