1
vote
2
replies
1.0k
views
DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, parametric = FALSE, : NA/NaN/Inf in foreign function call (arg 1)"
DMRcate Gviz
updated 26 days ago by ▴ 180 • written 14 months ago by ▴ 10
2
votes
4
replies
284
views
Error EPICv2 ChAMP
ChAMPdata IlluminaHumanMethylationEPICv2anno.20a1.hg38 ChAMP
updated 26 days ago by 65k • written 4 weeks ago by • 0
4
votes
6
replies
471
views
FilterByExpr low counts with small sample size
edgeR
4 weeks ago • updated 26 days ago Jonathan ▴ 10
0
votes
1
reply
136
views
FDR via q-value
qvalue
updated 26 days ago by 65k • written 29 days ago by • 0
6
votes
12
replies
5.1k
views
BiocFileCache/ExperimentHub/AnnotationHub temporary ERROR
BiocFileCache AnnotationHub ExperimentHub
6 months ago • updated 26 days ago shepherl 3.9k
3
votes
2
replies
231
views
Cannabis and KEGGgraph
KEGGREST GenomicDistributionsData KEGGgraph KEGG
updated 26 days ago by ★ 4.0k • written 29 days ago by ▴ 10
0
votes
2
replies
239
views
RNAseq:Technical replicates from different batches
technicalReplicates BatchEffect limma RNASeq
29 days ago • updated 26 days ago catv • 0
0
votes
0
replies
95
views
Unlocking Potential: NURS FPX Strategies and Insights
levi NURSFPX ragene20sttranscriptcluster.db ssrch
28 days ago vaxahey107 • 0
3
votes
3
replies
368
views
permutation test in edgeR
rna-seq edgeR
updated 28 days ago by 50k • written 5 weeks ago by • 0
0
votes
18
replies
2.6k
views
problem installing ENmix package
ENmix Bioconductor rtracklayer
written 3.2 years ago by • 0
0
votes
0
replies
105
views
I am trying to detect alternative splicing.
ASpli
28 days ago Sebashish • 0
3
votes
1
reply
1.5k
views
Job: Post Doctoral position in AI (Deep learning / Machine learning) approaches for Cancer Research, MRC Cancer Unit, University of Cambridge, UK
job Job machine learning deep learning computational biology
written 6.3 years ago by ▴ 180
0
votes
2
replies
819
views
Job: Bioinformatics Laboratory Head in AI or machine learning (WEHI, Australia)
bioconductor artificialintelligence JobPosting machinelearning
written 8 months ago by 50k
0
votes
4
replies
267
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind DESeq2 ATACSeq
4 weeks ago • updated 29 days ago lonn • 0
1
vote
2
replies
264
views
How to retrieve detailed regression results from deseq2
DESeq2
5 weeks ago • updated 29 days ago Weiqian ▴ 10
1
vote
0
replies
352
views
Tutorial: Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
bioconductor Install
29 days ago BioinfGuru ▴ 30
0
votes
7
replies
449
views
DESeq filtering specific to contrasts
DESeq2
updated 29 days ago by 42k • written 3 months ago by • 0
0
votes
2
replies
283
views
Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
featureCounts Rsubread
6 weeks ago • updated 29 days ago isaac.vock • 0
0
votes
3
replies
174
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 29 days ago by 65k • written 29 days ago by ▴ 30
2
votes
5
replies
794
views
DESeq2 setting significant p-value
DESeq2
updated 29 days ago by 42k • written 5.0 years ago by ▴ 10
2
votes
2
replies
220
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 29 days ago by 65k • written 4 weeks ago by • 0
6
votes
10
replies
1.7k
views
Which input file is used for DGEList in EgdeR?
salmon edgeR tximport nf-core gene_counts
updated 29 days ago by • 0 • written 15 months ago by ▴ 10
0
votes
4
replies
292
views
DEG with low counts
DESeq2
updated 29 days ago by 42k • written 4 weeks ago by • 0
6
votes
5
replies
477
views
Estimating Cell Counts for EPIC V2 array data
FlowSorted.Blood.EPIC minifi
written 11 weeks ago by • 0
0
votes
3
replies
214
views
Finding DEGs by using edgeR
subsettingdata edgeR designmatrix
updated 29 days ago by 50k • written 4 weeks ago by • 0
0
votes
2
replies
147
views
How to make DGEList and design matrix by edgeR package
DGEList edgeR
29 days ago prity6459 • 0
0
votes
2
replies
929
views
Problem for loading Bioconductor package in R
Bioconductor
written 4.3 years ago by • 0
11
votes
5
replies
7.4k
views
Theoretical WGCNA Question
WGCNA Theory Scale-Free Topology
updated 4 weeks ago by • 0 • written 9.2 years ago by ▴ 150
0
votes
4
replies
224
views
FGSEA pre-ranked input in increasing order or decreasing
fgsea
4 weeks ago sropri • 0
1
vote
2
replies
240
views
significant difference of p-values with dream() after updating VariancePartition
variancePartition
4 weeks ago Le • 0
0
votes
3
replies
286
views
A ComBat-seq issue: the covariates are confounded
ComBat-seq sva
updated 4 weeks ago by ▴ 850 • written 5 weeks ago by • 0
0
votes
0
replies
134
views
Warning while loading DEP package
DEP
updated 4 weeks ago by 3.9k • written 4 weeks ago by • 0
0
votes
1
reply
167
views
Adding columns to DEXSeqResults object
DEXSeq
updated 4 weeks ago by ★ 1.9k • written 4 weeks ago by • 0
0
votes
1
reply
158
views
rlog transformation
DESeq2
updated 4 weeks ago by 42k • written 4 weeks ago by • 0
0
votes
1
reply
128
views
ONT long-read RNA sequencing - data analysis options
DESeq2 LongRead DEXSeq IsoformSwitchAnalyzeR RNASeq
updated 4 weeks ago by 42k • written 4 weeks ago by • 0
0
votes
1
reply
149
views
covariate with negative and positive values
DESeq2
updated 4 weeks ago by 42k • written 4 weeks ago by • 0
1
vote
2
replies
180
views
Error in champ.load(): The following specified files do not exist
ChAMP
4 weeks ago Sherin • 0
9
votes
12
replies
7.9k
views
Multi factor design edgeR/Deseq2
deseq2 edgeR rna-seq
updated 4 weeks ago by • 0 • written 8.9 years ago by ▴ 30
5
votes
9
replies
975
views
Light difference when using coef vs omit a group when compare 3 groups.
limma
5 weeks ago • updated 4 weeks ago Chris ▴ 10
0
votes
1
reply
112
views
Input Question for deseq.r
RSeqAn
updated 4 weeks ago by ★ 4.1k • written 4 weeks ago by • 0
0
votes
1
reply
168
views
DESEQ2 output gives multiple groups when only 2 groups are present
DESeq2
updated 4 weeks ago by ★ 4.1k • written 4 weeks ago by • 0
3
votes
3
replies
246
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array BiocGenerics BiocParallel Biobase
5 weeks ago • updated 4 weeks ago jacques.imbert • 0
5
votes
9
replies
1.3k
views
Batch correction and repeated measures
RUVSeq sva limma
updated 4 weeks ago by 50k • written 7 months ago by ▴ 10
3
votes
18
replies
3.0k
views
News: List of Deprecated Packages for Bioc3.18
Deprecation devel Bioconductor Devel
10 months ago • updated 4 weeks ago shepherl 3.9k
0
votes
2
replies
953
views
Single-Cell Data Simulation from Bulk RNA-seq
SingleCell RNASeq RNASeqData scRNAseq
updated 4 weeks ago by • 0 • written 18 months ago by • 0
1
vote
7
replies
1.9k
views
Error using champ.import
ChAMP EPICv2
updated 4 weeks ago by • 0 • written 10 months ago by • 0
2
votes
5
replies
1.2k
views
DESeq2 remove batch effect
BatchEffect RNASeqData WGCNA DESeq2
updated 4 weeks ago by • 0 • written 11 months ago by • 0
0
votes
0
replies
95
views
News: Services
flowBeads
4 weeks ago creativepeptides2018 • 0
0
votes
0
replies
92
views
Enzyme Engineering
BioTIP
4 weeks ago bocchemistry • 0
0
votes
0
replies
98
views
News: TIDES USA 2024
flowBeads
4 weeks ago bocsci11 • 0
1,737 results • Page 4 of 35
Recent ...
Replies
Answer: Subsetting RNAseq data | voomaByGroup() by Gordon Smyth 50k
Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…
Answer: Numerical differences in DESeq2 output depending on different design matrix cons by Michael Love 42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs by Michael Love 42k
Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
Comment: Ensembl plants at annotationHub? by Daniele • 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
Awards • All
Popular Question to Dario Strbenac ★ 1.5k
Popular Question to Vincent J. Carey, Jr. 6.7k
Popular Question to Koen Van den Berge ▴ 180
Popular Question to shepherl 3.9k
Popular Question to Ken C • 0
Locations • All
The city by the bay, 9 minutes ago
WEHI, Melbourne, Australia, 23 minutes ago
Sweden, 32 minutes ago
Melbourne, Australia, 45 minutes ago
Hong Kong, 2 hours ago
Traffic: 373 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6