0
votes
2
replies
998
views
how to add annotation on individual track
Gviz
updated 2.6 years ago by ▴ 750 • written 2.6 years ago by ▴ 60
1
vote
8
replies
2.1k
views
News: Final List of Deprecated Package Bioc 3.9
deprecation release software experimentData News
written 6.7 years ago by 4.2k
2
votes
1
reply
1.5k
views
scaledTPM for DESeq2 using tximport
DESeq2 tximport
updated 2.6 years ago by 43k • written 2.6 years ago by • 0
2
votes
7
replies
3.0k
views
optimHess problem in apeglm/DESeq2
DESeq2 apeglm
updated 2.6 years ago by 43k • written 2.6 years ago by ★ 5.0k
1
vote
2
replies
1.1k
views
Obtention of the binomial transformed count table with edgeR
DESeq2 edgeR RNASeq DifferentialExpression
updated 2.6 years ago by 53k • written 2.6 years ago by • 0
3
votes
1
reply
1.4k
views
'Seurat' package
singlecell seurat
updated 2.6 years ago by ★ 5.0k • written 2.6 years ago by ▴ 10
0
votes
1
reply
814
views
DESeq2: Comparison between 1 test sample with 1 control sample
DESeq2
updated 2.6 years ago by ★ 5.0k • written 2.6 years ago by • 0
20
votes
5
replies
11k
views
Tutorial: Updated Support Site Editor
support.bioconductor.org editor markdown updates Tutorial
updated 4 months ago by • 0 • written 6.9 years ago by 4.2k
0
votes
1
reply
1.6k
views
Potential segfault bug in featureCounts using long read data
Bioconductor Rsubread featureCounts
updated 2.6 years ago by ★ 3.6k • written 2.6 years ago by • 0
0
votes
1
reply
1.5k
views
Choosing the right lower limit for emptyDrops
SingleCell emptyDrops 10X
updated 2.6 years ago by ▴ 760 • written 2.6 years ago by • 0
0
votes
1
reply
713
views
polyester biases
polyester
updated 2.6 years ago by 43k • written 2.6 years ago by ▴ 10
0
votes
3
replies
1.4k
views
Account for heteroscedasticity when fitting gene expression data
RNAseq
updated 2.6 years ago by 43k • written 2.6 years ago by • 0
2
votes
17
replies
3.5k
views
lfcshrink error DESeq2
DESeq2 lfcshrink DESe
updated 2.6 years ago by 43k • written 2.6 years ago by • 0
3
votes
5
replies
4.2k
views
Errors with DiffBind, Error in peaks[, pCol]/max(peaks[, pCol]) : non-numeric argument to binary operator
DiffBind
updated 4 months ago by • 0 • written 2.6 years ago by ▴ 10
0
votes
2
replies
868
views
Deseq2 design
DESeq2 genes Differential expressed
2.6 years ago Syed Zaheer ▴ 10
1
vote
4
replies
1.4k
views
How to annotate mir4.1 arrays?
AffymetrixChip miRNA oligo
2.6 years ago • updated 2.4 years ago richardallenfriedmanbrooklyn ▴ 30
0
votes
2
replies
1.3k
views
DESeq: low p-values for genes with zero counts in all but one sample of the compared groups
DESeq2 DifferentialExpression
2.6 years ago António Miguel de Jesus Domingues ▴ 510
2
votes
4
replies
3.2k
views
How to construct a SummarizedExperiment object?
SummarizedExperiment
2.6 years ago Yijing • 0
1
vote
2
replies
851
views
Contrast of Contrasts in Limma
limma DifferentialExpression
2.6 years ago mpitz • 0
0
votes
3
replies
2.5k
views
Recount3 error with default "recount3_url" option
recount3
updated 2.6 years ago by ★ 1.1k • written 3.1 years ago by ▴ 110
0
votes
2
replies
1.4k
views
Recount3 data download problem
recount recount3
updated 2.6 years ago by ★ 1.1k • written 3.0 years ago by ▴ 10
2
votes
6
replies
2.2k
views
Unable to load data from duffel.rail
recount recountWorkflow recount3
updated 2.6 years ago by ★ 1.1k • written 3.0 years ago by • 0
2
votes
11
replies
2.8k
views
Not able to download recount3 data
recount3
updated 2.6 years ago by ★ 1.1k • written 3.0 years ago by ▴ 20
0
votes
2
replies
1.3k
views
Cannot download data from IDIES links
recount recountWorkflow recount3
updated 2.6 years ago by ★ 1.1k • written 3.0 years ago by • 0
1
vote
3
replies
2.2k
views
DESeq2 1.40.0 binary install issue on Mac M1 (Bioconductor 3.17)
DESeq2
written 2.6 years ago by ▴ 10
0
votes
0
replies
1.0k
views
News: RNA-seq analysis with Bioconductor Carpentries workshop, Boston, Jul 31-Aug 1
Bioconductor Event Community Training
2.6 years ago Maria Doyle ▴ 110
1
vote
3
replies
1.9k
views
Can i perform DEseq2 from 2 different rse objects download from RECOUNT database
DESeq2 recount GTEx TCGA recount3
updated 2.6 years ago by ★ 5.0k • written 2.6 years ago by ▴ 20
1
vote
11
replies
3.4k
views
BiocParallel 1.33.12 binary has incorrect library linkage on macOS x86
BiocParallel
updated 2.6 years ago by 25k • written 2.6 years ago by ▴ 90
4
votes
4
replies
2.2k
views
S4Vectors masking utils::findMatches is returning warnings in R 4.3 / Bioconductor 3.17
S4Vectors
written 2.6 years ago by ▴ 90
0
votes
2
replies
820
views
Developing new features
Rbowtie2
2.6 years ago Franck RICHARD • 0
0
votes
3
replies
1.2k
views
how to do splot with opls?
splots
updated 2.6 years ago by 4.2k • written 2.6 years ago by • 0
0
votes
0
replies
759
views
Getting the exon co-ordinates and location
exon AnnotationHubData
2.6 years ago mahima.g • 0
2
votes
2
replies
976
views
load failed for ‘DESeq2’
DESeq2
updated 2.6 years ago by 4.2k • written 2.6 years ago by ▴ 10
1
vote
3
replies
1.6k
views
Is it okay to increase filtering to get more significant Adjusted P Values for DEGs found using Limma?
RNASeqPower edgeR DifferentialExpression limma RNASeq
updated 2.6 years ago by 53k • written 2.6 years ago by • 0
0
votes
1
reply
914
views
WGCNA for one perturbation time series (pooled from two independent replicates)?
WGCNA
updated 2.6 years ago by ★ 5.0k • written 2.6 years ago by • 0
0
votes
1
reply
951
views
custom annotations with annotatr
annotatr
2.6 years ago luca.s ▴ 50
0
votes
0
replies
1.9k
views
PLSDA : No model was built because the first predictive component was already not significant.
plsda
2.6 years ago MLF • 0
3
votes
7
replies
2.1k
views
failed to use tximport for creating count matrix from kallisto
tximport kallisto
2.6 years ago Yijing • 0
0
votes
0
replies
995
views
Volcano plot
limma AffymetrixChip
2.6 years ago e.gunaut • 0
0
votes
4
replies
1.8k
views
Limma multi-group, nested analysis with aggregation
limma
2.6 years ago • updated 2.4 years ago Jonathan ▴ 10
1
vote
1
reply
1.1k
views
urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 2.6 years ago by ▴ 40 • written 2.6 years ago by • 0
0
votes
1
reply
1.1k
views
Subtype specific differential expression analysis
R limmaGUI edgeR limma regutools
updated 2.6 years ago by 53k • written 2.6 years ago by • 0
8
votes
12
replies
3.9k
views
DESeq2 1.40.0 binary install issue on macOS x86 (Bioconductor 3.17)
DESeq2
updated 2.6 years ago by 43k • written 2.6 years ago by ▴ 90
0
votes
2
replies
2.5k
views
model matrix not full rank
DESeq2 RNASeq
updated 2.6 years ago by • 0 • written 2.6 years ago by • 0
0
votes
2
replies
820
views
ANOVA-like testing for bulkRNAseq with three conditions with Wald test
DESeq2
updated 2.6 years ago by ★ 5.0k • written 2.6 years ago by • 0
0
votes
1
reply
601
views
calculating effect of condition taking into account patient origin and clone_origin
DESeq2
updated 2.6 years ago by 43k • written 2.7 years ago by • 0
1
vote
2
replies
823
views
Wondering if DESeq2 is appropriate for PhIP-seq data?
DESeq2 PhIP-seq
2.7 years ago • updated 2.6 years ago Samantha • 0
0
votes
1
reply
1.1k
views
What is the correct way to split genex_high and genex_low groups for DE analysis?
DESeq2 RNASeq
updated 2.6 years ago by 43k • written 2.7 years ago by • 0
0
votes
0
replies
942
views
How to speed up pileup from Rsamtools?
Rsamtools pileup
2.6 years ago alexandr.gopanenko ▴ 50
1
vote
4
replies
8.8k
views
Error loading impute(): '/usr/lib/libgfortran.5.dylib' (no such file)
Install impute
updated 2.6 years ago by • 0 • written 3.9 years ago by • 0
46,698 results • Page 53 of 934
Recent ...
Replies
Answer: How does contrasts.fit do in limma to extract comparisons with a model having in by Gordon Smyth 53k
The limma Users Guide explains how to test for interactions or to test for contrasts very easily. limma can work with any design matrix, bu…
Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Awards • All
Popular Question to Istvan Albert ▴ 50
Popular Question to Dario Strbenac ★ 1.6k
Scholar to Nikos Ignatiadis ▴ 180
Popular Question to Robert • 0
Popular Question to lamia11me • 0
Locations • All
Barcelona, Spain, 24 minutes ago
USA, 25 minutes ago
Japan, 34 minutes ago
France, 45 minutes ago
United States, 59 minutes ago
Traffic: 1739 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