0
votes
1
reply
131
views
putting my own expression data in deseq2
DESeq2
updated 15 days ago by ★ 4.1k • written 15 days ago by • 0
2
votes
2
replies
227
views
Perform gene set enrichment analysis using fgsea on two conditions that don't have differential express genes
fgsea
16 days ago Chris ▴ 10
0
votes
0
replies
90
views
Could we detect difference at pathway level but not significant different at gene level?
GSVA
16 days ago Chris ▴ 10
0
votes
4
replies
260
views
Minfi - estimatecellscount
min minfi
updated 16 days ago by 65k • written 6 weeks ago by • 0
3
votes
3
replies
259
views
DESeq2: Contrast for two conditions combined versus one condition (A+B_vs_C)
DESeq2 contrasts
updated 16 days ago by ★ 4.1k • written 16 days ago by ▴ 10
0
votes
0
replies
98
views
how to do Differential splicing from SGSeq analysis
DEXSeq SGSeq
21 days ago • updated 16 days ago Sara • 0
1
vote
1
reply
148
views
Dominance Index for Shotgun Metagenomics Data
microbiome
updated 18 days ago by ▴ 40 • written 19 days ago by ★ 1.5k
1
vote
7
replies
346
views
Math expression in shapeCustom legend in EnhancedVolcano
EnhancedVolcano
20 days ago • updated 19 days ago pl23 • 0
0
votes
2
replies
224
views
PCA plot suggestions
DESeq2 PCAtools
updated 19 days ago by 42k • written 20 days ago by • 0
1
vote
2
replies
732
views
DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
DESeq2
28 days ago • updated 19 days ago Patadù ▴ 10
1
vote
3
replies
248
views
Deseq2. decontXcounts not integers. Useful alternative?
DESeq2 celda
updated 19 days ago by 42k • written 20 days ago by • 0
0
votes
1
reply
164
views
ATACseq merge peaks
DiffBind
updated 19 days ago by ★ 4.1k • written 21 days ago by • 0
1
vote
4
replies
352
views
Opposite sign of LFC in count plots of DEGs (DESeq2)
DESeq2
21 days ago • updated 19 days ago winwater0928 • 0
2
votes
9
replies
420
views
Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
DESeq2 RUVSeq RUVseq BatchEffect DES
updated 20 days ago by 65k • written 20 days ago by • 0
2
votes
5
replies
255
views
How to retrieve gene ontology GO class from gene list?
GO.db goTools
updated 20 days ago by 65k • written 21 days ago by • 0
1
vote
2
replies
172
views
Reproducibility issue with scran together with lapply and BiocParallel
scran BiocParallel bluster
21 days ago • updated 20 days ago ATpoint ★ 4.1k
0
votes
2
replies
263
views
featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_get_next_read_BIN: Assertion `l_name < 256' failed. Aborted (core dumpe…
metaMSdata
22 days ago • updated 20 days ago shuwangxinze1996 • 0
0
votes
8
replies
377
views
DESeq2 output used for PCA plot on R studio
DESeq2 RSTUDIO PCAtools
updated 20 days ago by ★ 1.4k • written 22 days ago by • 0
0
votes
1
reply
164
views
DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
DESeq2 RNAseq
updated 20 days ago by 42k • written 21 days ago by • 0
2
votes
13
replies
467
views
Trying to use enrichGO
clusterProfiler GenomicDistributionsData KEGG
24 days ago • updated 20 days ago fernanda.backsouza ▴ 10
2
votes
5
replies
298
views
get BM error
ensembldb
updated 21 days ago by 65k • written 21 days ago by • 0
0
votes
5
replies
320
views
Error for AnnotationForge makeOrgPackageFromNCBI function
OrgDb AnnotationForge
updated 21 days ago by 65k • written 24 days ago by • 0
0
votes
0
replies
96
views
Exon-exon Junction Analysis for Variable-length Exons
Rsubread
21 days ago Dario Strbenac ★ 1.5k
1
vote
3
replies
231
views
Different Shrunk Log2FC according with reference
DESeq2
updated 21 days ago by 42k • written 21 days ago by ▴ 20
1
vote
3
replies
882
views
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
clusterProfiler RNASeq
updated 21 days ago by ★ 1.2k • written 14 months ago by ▴ 10
1
vote
4
replies
219
views
minfi::read.metharray.exp
minfiData minfi
updated 21 days ago by ▴ 780 • written 23 days ago by • 0
3
votes
1
reply
325
views
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
DESeq2
updated 21 days ago by 42k • written 22 days ago by ▴ 40
0
votes
7
replies
738
views
News: List of Deprecated Packages for Bioc3.19
Release Devel ExperimentData Software
10 weeks ago • updated 22 days ago shepherl 3.9k
1
vote
1
reply
128
views
Cannabis OrgDb
KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware
updated 22 days ago by 65k • written 22 days ago by ▴ 10
0
votes
0
replies
79
views
News: Interested in the analysis of Spatial Omics data?
tidySpatialExperiment SpatialExperiment MoleculeExperiment
22 days ago info ▴ 10
3
votes
3
replies
245
views
DESeq2 - dispersion estimation when there is none
DESeq2
updated 22 days ago by 42k • written 23 days ago by • 0
0
votes
7
replies
348
views
Methylation Analysis experiment design using Limma
DNAMethylation limma methylationArrayAnalysis
28 days ago • updated 22 days ago hortense96 • 0
5
votes
8
replies
8.8k
views
Limma design with continuous and categorical covariates
limma batch effect covariates microarray
updated 22 days ago by • 0 • written 7.8 years ago by ▴ 30
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 22 days ago by ▴ 180 • written 14 months ago by ▴ 10
2
votes
4
replies
270
views
Error EPICv2 ChAMP
ChAMPdata IlluminaHumanMethylationEPICv2anno.20a1.hg38 ChAMP
updated 23 days ago by 65k • written 27 days ago by • 0
4
votes
6
replies
457
views
FilterByExpr low counts with small sample size
edgeR
28 days ago • updated 23 days ago Jonathan ▴ 10
0
votes
1
reply
133
views
FDR via q-value
qvalue
updated 23 days ago by 65k • written 26 days ago by • 0
6
votes
12
replies
5.0k
views
BiocFileCache/ExperimentHub/AnnotationHub temporary ERROR
BiocFileCache AnnotationHub ExperimentHub
6 months ago • updated 23 days ago shepherl 3.9k
3
votes
2
replies
226
views
Cannabis and KEGGgraph
KEGGREST GenomicDistributionsData KEGGgraph KEGG
updated 23 days ago by ★ 4.0k • written 25 days ago by ▴ 10
0
votes
2
replies
234
views
RNAseq:Technical replicates from different batches
technicalReplicates BatchEffect limma RNASeq
26 days ago • updated 23 days ago catv • 0
0
votes
3
replies
1.2k
views
News: European Bioconductor Conference 2023 planning
Europe Conference EuroBioC Events News
updated 23 days ago by • 0 • written 18 months ago by ▴ 70
0
votes
0
replies
92
views
Unlocking Potential: NURS FPX Strategies and Insights
levi NURSFPX ragene20sttranscriptcluster.db ssrch
24 days ago vaxahey107 • 0
3
votes
3
replies
362
views
permutation test in edgeR
rna-seq edgeR
updated 24 days ago by 50k • written 5 weeks ago by • 0
0
votes
18
replies
2.5k
views
problem installing ENmix package
ENmix Bioconductor rtracklayer
written 3.2 years ago by • 0
0
votes
0
replies
103
views
I am trying to detect alternative splicing.
ASpli
25 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
811
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
257
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind DESeq2 ATACSeq
28 days ago • updated 25 days ago lonn • 0
1
vote
2
replies
257
views
How to retrieve detailed regression results from deseq2
DESeq2
4 weeks ago • updated 26 days ago Weiqian ▴ 10
1
vote
0
replies
329
views
Tutorial: Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
bioconductor Install
26 days ago BioinfGuru ▴ 30
196 results • Page 3 of 4
Recent ...
Replies
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Marcel Ramos 690
`BiocManager` does not install local packages. It only installs Bioconductor, CRAN, and GitHub ones. You should install local packages w…
Comment: error running enricher from clusterprofiler by Yael • 0
It worked!!! Thanks alot, i think something in the gene_list wasnt right... Thanks agian
Comment: Create protein sequences including variants from a VCF file by Yun • 0
This cannot work for a SNV file, since `injectSNPs` need a `SNPlocs` object
Comment: Can log2cpm be used for proteomics data normalization? by Daniel • 0
Thank you for the quick reply and I apologize for it being on the wrong thread but the "post tag" function wasn't working properly.
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Patadù ▴ 10
I have arranged the code again following the other post and also the script you suggested. Now, I managed to install `org.Vdahliae.eg.db`. …
Votes
Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Answer: Trim/Filter out-of-bounds GRanges
Comment: How to correctly adjust for gender in edgeR
Create protein sequences including variants from a VCF file
A: DEXSeq design formula
Awards • All
Scholar to Michael Love 42k
Popular Question to Vincent J. Carey, Jr. 6.7k
Popular Question to boczniak767 ▴ 720
Popular Question to jmoon1194 • 0
Popular Question to mat.lesche ▴ 90
Locations • All
France, just now
United States, 5 minutes ago
United States, 7 minutes ago
United States, 13 minutes ago
United States, 50 minutes ago
Traffic: 862 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