Showing : Error • reset
0
votes
1
reply
352
views
Error in readCodelinkSet function
error codelink
updated 4 months ago by 68k • written 4 months ago by • 0
0
votes
7
replies
4.1k
views
Graphics API Version Mismatch Error with DESeq2 and ggplot2 in RStudio on Ubuntu 22.04
error RStudio ggplot2 DESeq2
updated 22 months ago by 68k • written 22 months ago by • 0
12
votes
10
replies
16k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 17 months ago by • 0 • written 22 months ago by ▴ 20
0
votes
0
replies
601
views
proActiv - Error in estimateSizeFactorsForMatrix when using the proActiv function
proActiv error estimateSizeFactorsForMatrix
22 months ago Chris • 0
0
votes
1
reply
1.4k
views
Problems when running GDC_prepare in R
TCGAbiolinks error GDC_prepare
22 months ago leon • 0
0
votes
3
replies
1.2k
views
DiffBind issue with edgeR$bTagwise and DESeq2$fitType
Config DiffBind Error
updated 2.1 years ago by ★ 5.2k • written 2.1 years ago by • 0
0
votes
17
replies
4.7k
views
What causes this DESeq2 error at "fitting model and testing"?
deseq2 differential expression error
updated 2.2 years ago by • 0 • written 8.0 years ago by • 0
0
votes
1
reply
844
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 2.3 years ago by 68k • written 2.3 years ago by • 0
0
votes
0
replies
863
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
2.4 years ago aymanreffai • 0
0
votes
8
replies
1.9k
views
fail to annotate chromosome data to single cell object
error SingleCell annotate
updated 22 months ago by • 0 • written 2.5 years ago by • 0
0
votes
2
replies
993
views
Error message trying to open downloaded package
error DEP
2.6 years ago kcpaul168 • 0
0
votes
0
replies
885
views
DEqMS function "outputResult" reports wrong sca.adj.pval
outputresult DEqMS sca.adj.pval error p-value
2.9 years ago Bastian • 0
0
votes
3
replies
1.5k
views
tximport error
error tximport
updated 3.0 years ago by 43k • written 3.0 years ago by • 0
0
votes
3
replies
3.2k
views
[ExpressionSet] Question: Error in validObject(.Object)
ExpressionSet Assay NanoString Error Data
updated 3.1 years ago by 68k • written 3.1 years ago by • 0
0
votes
7
replies
2.0k
views
Centos 7.8, custom-compiled R-4.1: iPath_1.0.0 won't install
error iPath R compilation
3.7 years ago wjb2130 • 0
0
votes
2
replies
1.3k
views
Error in TFBSTools at SitesetList
error TFBSTools R
3.9 years ago • updated 3.8 years ago HELEN • 0
4
votes
9
replies
4.7k
views
biomaRt - getBM; Error with obtaining a dataset from getBM() function
biomaRt error getBM
updated 4.3 years ago by ★ 6.6k • written 4.6 years ago by ▴ 20
0
votes
3
replies
1.3k
views
bioconductor.org not reachable from EU region
error http429 server
4.4 years ago ashu.upadhyay2206 • 0
0
votes
2
replies
2.0k
views
Finding the correct version of DESeq2 for my version of R (3.6.1)
error DESeq2 Install
updated 4.5 years ago by 68k • written 4.5 years ago by • 0
1
vote
2
replies
3.7k
views
error in DESeq2 results(dds)
DESeq2 datasetfrommatrix results error
4.5 years ago james • 0
3
votes
4
replies
3.6k
views
R Error: package ‘GenomeInfoDb’ could not be loaded on MacBook
error mac DESeq2 GenomeInfoDb R
4.7 years ago • updated 4.6 years ago Dan ▴ 20
1
vote
1
reply
1.3k
views
Errors in installing RforProteomics package
error RforProteomics Install
updated 4.8 years ago by ★ 6.6k • written 4.8 years ago by • 0
0
votes
1
reply
1.0k
views
testClusters and trimClusters error in BiSeq
BiSeq testClusters error dmr
5.2 years ago akhaira • 0
6
votes
6
replies
1.8k
views
Suggestion for next revision of edgeR User Guide re Design matrix setup
edger error
updated 5.3 years ago by 53k • written 5.3 years ago by • 0
0
votes
14
replies
3.4k
views
annFUN error TOPGO
TOPGO annFUN error
updated 5.4 years ago by ★ 4.0k • written 5.4 years ago by • 0
0
votes
0
replies
888
views
Error on FindOptimalBinning function
bhc error
5.5 years ago pavel.granalacant • 0
0
votes
0
replies
1.3k
views
Multicollinearity and pR2Y =0.1
opls-da error multicollinearity
5.6 years ago adriana.roca-fernandez • 0
0
votes
1
reply
1.4k
views
boxplot Error in Bioconductor
boxplot bioconductor R error
5.7 years ago l154359 • 0
0
votes
4
replies
1.3k
views
nucleR ERROR unable to find an inherited method for function peakDetection for signature
nucleosome peaks error Job
updated 5.7 years ago by 68k • written 5.8 years ago by • 0
0
votes
5
replies
2.4k
views
readTranscriptFeatures from genomation
R Rstudio Error readTranscriptFeatures genomation
updated 5.8 years ago by ▴ 20 • written 5.8 years ago by • 0
0
votes
3
replies
1.2k
views
Error in E-Eb Limma package
limma error E-Eb
updated 5.9 years ago by 53k • written 5.9 years ago by • 0
4
votes
7
replies
1.8k
views
bam files to hilbert curve
HilbertCurve error bamfiles GRobject
6.0 years ago adklts • 0
0
votes
6
replies
9.8k
views
Rhtslib - install error
Rhtslib installation error zlib
updated 6.0 years ago by • 0 • written 6.9 years ago by • 0
0
votes
1
reply
1.8k
views
DiffBind dba error
DiffBind dba R error
updated 6.1 years ago by ★ 5.2k • written 6.2 years ago by • 0
0
votes
1
reply
1.6k
views
Help with installation of readat package
readat error
updated 6.1 years ago by 4.2k • written 6.1 years ago by • 0
2
votes
2
replies
2.0k
views
TCGAbiolinks GDCprepare error
TCGAbiolinks GDCprepare error
updated 6.2 years ago by ▴ 270 • written 6.2 years ago by ▴ 10
0
votes
1
reply
2.6k
views
R: oligo packages install error
oligo packages error
updated 6.2 years ago by 25k • written 6.2 years ago by • 0
0
votes
0
replies
1.1k
views
Error in parseGenBank
genbankr parseGenBank gbk error
6.2 years ago ashley.dederich • 0
2
votes
3
replies
1.5k
views
How can I overcome the error of "No residual degrees of freedom in linear model fits"?
limma microarray error
updated 6.2 years ago by ★ 1.6k • written 6.2 years ago by ▴ 80
0
votes
6
replies
5.3k
views
Error in getOneSeqFromBSgenomeMultipleSequences During singeR tutorial
error
6.2 years ago dfcarril • 0
0
votes
4
replies
2.4k
views
DESeq2 compare all_vs_all levels error
deseq2 error RNAseq
updated 6.2 years ago by ★ 1.4k • written 6.2 years ago by ▴ 30
0
votes
3
replies
1.4k
views
Error in if (all(x <= minReadCount) & lambda <= minReadCount) { : missing value where TRUE/FALSE needed
cnmops cn.mops error
updated 6.2 years ago by 25k • written 6.2 years ago by • 0
0
votes
6
replies
2.6k
views
atacseqQC error while splittin the bamfile
ATACseqQC ATAC-seq error split bam file
updated 6.3 years ago by • 0 • written 6.4 years ago by ▴ 10
0
votes
8
replies
3.5k
views
tximport command error
tx2gene txi error
updated 6.3 years ago by 68k • written 6.3 years ago by • 0
2
votes
6
replies
2.1k
views
EdgeR glmTreat error
edger error
updated 6.4 years ago by 68k • written 6.4 years ago by • 0
1
vote
1
reply
1.3k
views
The query to the BioMart webservice returned an invalid result: biomaRt expected a character string of length 1
biomaRt error
updated 6.4 years ago by 68k • written 6.4 years ago by ▴ 10
0
votes
1
reply
1.1k
views
Error in intramodularConnectivity(ADJ1, colorh1) : object 'colorh1' not found
error wgcna affymetrix data
updated 6.4 years ago by ★ 3.0k • written 6.4 years ago by • 0
2
votes
6
replies
2.7k
views
featurecounts Rsubread ERROR on exon_id
R error software error Rsubread featurecounts
updated 6.4 years ago by ★ 3.6k • written 6.4 years ago by • 0
2
votes
3
replies
3.8k
views
DESeq2- preliminary study no replicates
deseq2 replicates error DESeqDataSetFromMatrix
updated 6.4 years ago by 43k • written 6.4 years ago by • 0
1
vote
1
reply
1.4k
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 6.5 years ago by ★ 6.6k • written 6.5 years ago by • 0
159 results • Page 1 of 4
Recent ...
Replies
Answer: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg? by Michael Love 43k
I'm not familiar with this usage, or code here ``` normFactors <- exp(-1 * offst(set2)) ``` In the RNA-seq gene-level workflow, we …
Answer: Which of apeglm and ashr may be more appropriate for pseudobulked DESeq2 analysi by Michael Love 43k
> apeglm appears much more aggressive in shrinkage, pushing many genes toward logFC = 0 > ashr maintains a gradient of shrinkage val…
Comment: voomLmFit fitted log-CPM values by Gordon Smyth 53k
The fitted values are on the log2CPM scale. I would have told you if they were not! I think you may be getting confused by the differences…
Comment: voomLmFit fitted log-CPM values by Lina ▴ 10
Is the output from fitted(v) in the log2 CPM scale? or CPM scale?
Answer: voomLmFit fitted log-CPM values by Gordon Smyth 53k
Fitted values are obtained from limma MArrayLM objects by ``` fitted(v) ```
Votes
A: How barcode-plot enrichment is calculated?
A: How barcode-plot enrichment is calculated?
Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
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