4
votes
4
replies
1.3k
views
visualization problem with BioMM package
BioMM
5.6 years ago parra.sev ▴ 20
0
votes
0
replies
1.1k
views
clustering of scRNAseq gene expression at multiple time points
scRNA-seq time series
5.6 years ago Bogdan ▴ 670
0
votes
0
replies
1.0k
views
Error in data.frame(ASSIGN = "ASSIGN parameters", version = as.character(utils::packageVersion("ASSIGN")), : arguments imply differing number of …
software error assign
5.6 years ago yueli7 ▴ 20
0
votes
1
reply
938
views
Which Package Should I Use to Predict Model Output Using RNA Seq Data?
regression
updated 5.6 years ago by 53k • written 5.6 years ago by • 0
0
votes
2
replies
2.8k
views
Error in taxa_are_rows(x) : trying to get slot "taxa_are_rows" from an object (class "otu_table") that is not an S4 object
deseq2 phyloseq
5.6 years ago jaiber.solano.i • 0
0
votes
1
reply
1.6k
views
DESeq2 normalization single cell
deseq2
updated 5.6 years ago by 43k • written 5.6 years ago by ▴ 100
6
votes
2
replies
1.6k
views
tximport + edgeR not recommended?
tximport edgeR
updated 5.6 years ago by 43k • written 5.6 years ago by • 0
2
votes
1
reply
1.4k
views
AnnotationHub errors when querying
annotation
updated 5.6 years ago by ★ 4.1k • written 5.6 years ago by ▴ 10
1
vote
5
replies
3.8k
views
Error: Input Files have different Amount of Reads
SubRead Align Subjunc
updated 5.6 years ago by 68k • written 5.6 years ago by • 0
2
votes
6
replies
1.8k
views
Question: Method to get normalize allele specific read counts
edger normalization
updated 5.6 years ago by ★ 29k • written 5.6 years ago by • 0
1
vote
6
replies
6.6k
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Error in .rowNamesDF<-(x, value = value) :duplicate row.names are not allowed DESeq2
deseq2 rownames
updated 4.4 years ago by 43k • written 5.6 years ago by ▴ 10
0
votes
3
replies
2.2k
views
SummarizedExperiement extract assay with no name
deseq2
updated 5.6 years ago by 25k • written 5.6 years ago by ▴ 10
2
votes
8
replies
1.8k
views
Reason for NA in table after beta regression?
biseq beta regression
5.6 years ago akhaira • 0
1
vote
3
replies
1.1k
views
Mixed-up column names for getBM()?
annotation
updated 5.6 years ago by 68k • written 5.6 years ago by • 0
0
votes
2
replies
771
views
Two data set: Control sample is one data set and Case is another data with Time-series
LIMMA
5.6 years ago yuvayuvi369 • 0
2
votes
2
replies
1.7k
views
Tximport missing values for group summarizing counts
tximport rat reference GTF salmon
5.6 years ago keremwai • 0
1
vote
1
reply
1.1k
views
Is transcript color accessible through ensembldb? (gold = in both HAVANA+ENSEMBL)
ensembldb
updated 5.6 years ago by ★ 2.1k • written 5.6 years ago by ▴ 160
2
votes
4
replies
2.2k
views
Obtaining Comments From VCF Header
VariantAnnotation VCFHeader
written 5.6 years ago by ★ 1.6k
0
votes
8
replies
1.3k
views
Deseq2 weird values for Log2FC and pvalue.
deseq2 rnaseq r
updated 5.6 years ago by 43k • written 5.6 years ago by • 0
1
vote
7
replies
2.1k
views
Question:Error installing BiocManager::install("org.Hs.eg.db") package.
software error
updated 5.6 years ago by ★ 4.0k • written 5.6 years ago by • 0
6
votes
5
replies
1.6k
views
Security process for Bioconductor
software error
updated 5.6 years ago by 25k • written 5.6 years ago by ▴ 30
3
votes
3
replies
2.9k
views
EnsDb.Rnorvegicus for Rnor6
annotation db reference rnor6
updated 5.6 years ago by ★ 4.1k • written 5.6 years ago by • 0
0
votes
1
reply
1.3k
views
mircomb analysis from deg's list
mircomb mrna mirna degs interaction
5.6 years ago andreia ▴ 10
0
votes
2
replies
1.2k
views
mirna-mrna interation mircomb (from DEGs and DEMs lists)
deseq2 mircomb degs dems
updated 5.6 years ago by 43k • written 5.6 years ago by ▴ 10
12
votes
5
replies
5.6k
views
Rsamtools is not available for (for R version 4.0.2)
Rsamtools
updated 18 months ago by • 0 • written 5.6 years ago by ▴ 40
4
votes
6
replies
2.0k
views
Extremely big genes in annotation TxDb packages
annotation txdb AnnotationData Genetics
updated 5.6 years ago by 68k • written 5.6 years ago by ▴ 10
0
votes
3
replies
905
views
DESeq2 Design Model and Results Function Set-Up - How to know if using the interaction term is appropriate?
deseq2 rnaseq
updated 5.6 years ago by 43k • written 5.6 years ago by • 0
0
votes
1
reply
1.1k
views
How to obtain the specific genelists mentioned in the RNASeq DTU workflow?
rnaseqdtu RNASeq DEXSeq DESeq2
updated 5.6 years ago by 43k • written 5.6 years ago by ▴ 10
1
vote
3
replies
767
views
MAplots after lfcshrink
DESeq2
updated 5.6 years ago by 43k • written 5.6 years ago by • 0
0
votes
1
reply
1.8k
views
do expression of leading edges within a negative NES term reflect the same direction as it's enrichment score? aka downregulation of leading edges
fgsea
updated 5.6 years ago by ▴ 280 • written 5.6 years ago by ▴ 30
0
votes
0
replies
791
views
According to SCBN method, is it possible to acquire normalized data for virtualziation?
SCBN normalization
5.6 years ago tofukaj • 0
5
votes
11
replies
2.4k
views
Visualization tool for GC-bias in SE data?
GC-bias ALPINE visualization
updated 5.6 years ago by 43k • written 5.6 years ago by ▴ 20
2
votes
6
replies
2.0k
views
Why is an averaged reference used in DESeq2 normalisation?
deseq2 scran batchelor
updated 5.6 years ago by ★ 29k • written 5.6 years ago by • 0
1
vote
1
reply
961
views
A question for clarification regarding counts input to DESeqDataSetFromMatrix
deseq2
updated 5.6 years ago by 43k • written 5.6 years ago by ▴ 60
1
vote
2
replies
1.3k
views
EdgeR blocking factor - missing paired sample
EdgeR edgeR RNA-seq differential expression analysis blocking factors
updated 5.6 years ago by 53k • written 5.6 years ago by ▴ 60
0
votes
4
replies
3.0k
views
Error: unexpected string constant in "suppressPackageStartupMessages(.getRequiredPackages(quietly = TRUE)), when installed the package "Mus.musculus"…
install packages Mus.musculus
updated 5.6 years ago by ★ 4.0k • written 5.6 years ago by • 0
0
votes
0
replies
778
views
What values to include for predictedMethNull in BiSeq
Biseq
5.6 years ago akhaira • 0
0
votes
0
replies
1.3k
views
Job: Senior Postdoc/Bioinformatician Research Fellow @ UEA, Norwich, UK - New deadline
cancer nextgenerationsequencing prostate Job
5.9 years ago • updated 5.6 years ago Daniel Brewer ▴ 100
4
votes
6
replies
3.2k
views
Using spike-in RNA for normalization of Salmon counts imported using Tximport
deseq2 Tximport Sizefactors normalizationfactors spike-in
updated 5.6 years ago by 43k • written 5.6 years ago by • 0
0
votes
0
replies
866
views
ViseaGO merge_enrich_terms ERROR
go
5.6 years ago zaza.inline • 0
0
votes
2
replies
14k
views
ComplexHeatmap - how to change the position of the legend of rowAnnotation
ComplexHeatmap
updated 8 months ago by ▴ 10 • written 5.6 years ago by • 0
1
vote
1
reply
932
views
Obtain Protein-Protein Interaction (PPI) table from a list of Gene IDs in R or Python.
Protein Protein Interaction Gene List BioGRID PICKLE R Programming
5.6 years ago omarrafiqued ▴ 50
1
vote
2
replies
1.9k
views
"Error in nbinomLRT(... less than one degree of freedom"... Isolating main and interaction effects with the LRT?
deseq2 main effects interaction effects R lrt
updated 5.6 years ago by 43k • written 5.6 years ago by • 0
0
votes
9
replies
4.9k
views
WGCNA module trait relationship issue
wgcna
updated 5.6 years ago by ★ 3.0k • written 5.6 years ago by • 0
7
votes
4
replies
2.5k
views
How does BiocParallel export variables to threads?
BiocParallel SnowParam parallel
updated 5.6 years ago by 25k • written 5.6 years ago by ▴ 170
1
vote
3
replies
1.8k
views
Package DECHIPER successfully downloaded but not installed
DECHIPER unsuccessfull installation
updated 5.6 years ago by ▴ 160 • written 5.6 years ago by • 0
4
votes
5
replies
1.8k
views
Custom Functional for automated DESeq2 running
deseq2
updated 5.6 years ago by ★ 1.4k • written 5.6 years ago by ▴ 20
0
votes
2
replies
2.0k
views
Hightlight genes/metabolites in Pathview and ReactomePA
pathview ReactomePA
updated 5.6 years ago by 68k • written 5.6 years ago by • 0
0
votes
2
replies
2.4k
views
DESeq2 doubts about transformations + nbinomWaldtest warning
rna-seq deseq2 warnings nbinomWaldTest transformation
updated 5.6 years ago by 43k • written 5.6 years ago by ▴ 10
5
votes
9
replies
7.7k
views
Pipeline to analyzing Microarray data set( GSE files from NCBI GEO)
microarray affy
updated 5.6 years ago by ★ 4.0k • written 5.6 years ago by ▴ 40
46,730 results • Page 161 of 935
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