Showing : Dexseq • reset
1
vote
1
reply
1.4k
views
Differential exon usage analysis using DEXSeq for mRNA and lncRNA separately
DEXSeq
updated 4.9 years ago by ★ 1.9k • written 4.9 years ago by • 0
0
votes
2
replies
1.8k
views
DEXSeq - what is the best way to filter out low expressed exons / genes?
dexseq
5.4 years ago • updated 5.0 years ago aleksandar.baburski.g • 0
1
vote
6
replies
4.9k
views
DEXSeq: question about usage coefficient and splicing plot
dexseq
updated 5.0 years ago by ▴ 20 • written 10.6 years ago by • 0
0
votes
2
replies
1.9k
views
Interpreting the EstimateDispersion plot from the DEXSeq package
dexseq estimatedispersions
updated 5.0 years ago by ▴ 20 • written 7.9 years ago by • 0
6
votes
7
replies
2.3k
views
Strategy to perform DESeq, DEXSeq workflow
DEXSeq DESeq2
updated 4.9 years ago by 43k • written 5.0 years ago by ▴ 20
0
votes
2
replies
1.2k
views
DEXSeq : can we plot from the table of results or/and run DEXSeq from a matrix of counts like in DESeq2?
DEXseq
updated 5.3 years ago by ★ 3.8k • written 5.3 years ago by • 0
0
votes
4
replies
2.3k
views
Calculating per-exon PSI from DEXSeq
DEXSeq
5.3 years ago Angel Liang • 0
1
vote
2
replies
1.6k
views
Detailed explanations for DEXSeq output columns
DEXSeq
updated 5.3 years ago by ★ 1.9k • written 5.3 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 5.4 years ago by 43k • written 5.4 years ago by ▴ 10
1
vote
2
replies
1.6k
views
DEXSeq dispersion estimation optimisation for large number of samples
DEXSeq estimateDispersions
5.4 years ago aleksandar.baburski.g • 0
0
votes
2
replies
1.2k
views
DEXSeq HTML report Error
DEXSeq
updated 5.4 years ago by ★ 4.0k • written 5.4 years ago by • 0
0
votes
0
replies
1.0k
views
Subset samples expressing genes for DEXSeq or DRIMSeq analysis
DEXSeq DRIMSeq
5.5 years ago alexis.weinreb • 0
1
vote
2
replies
2.2k
views
DEXSeq Python script dexseq_prepare_annotation.py unable to process my .gtf file
dexseq python gtf gff3 annotation
5.5 years ago Raito92 ▴ 60
0
votes
1
reply
1.3k
views
DEXseq conversion of GTF to GFF creating incorrect exon coordinates
software error DEXSeq
5.5 years ago knuppdav • 0
1
vote
3
replies
2.0k
views
DEXSeq with large(ish) number of samples
DEXSeq exon memory dispersions estimateDispersions
5.5 years ago andreismolnikov00 • 0
0
votes
0
replies
2.1k
views
summarizeOverlaps - (GenomicAlignments) - gives warnings 'package:stats' may not be available when loading
GenomicAlignments summerizeOverlaps-Method DEXSeq
updated 5.6 years ago by 25k • written 5.6 years ago by ▴ 10
3
votes
3
replies
2.6k
views
Calculation of Log2 fold change in DEXSeq
DEXSeq log2foldchange Tutorial
updated 4.2 years ago by ▴ 20 • written 5.6 years ago by ▴ 20
1
vote
2
replies
967
views
How to set model formulae in DEXSeq when 2 shRNAs were used to target a same gene
DEXSeq
updated 5.6 years ago by ★ 1.9k • written 5.6 years ago by ▴ 10
0
votes
3
replies
1.6k
views
DEXSeq Splicing Result with incomplete lines between exons
DEXSeq Splicing Exon Usage
5.8 years ago gunjan.dikshit • 0
2
votes
6
replies
3.7k
views
featureCount error - cannot identify gene_id
dexseq rsubread featureCount software error
updated 5.9 years ago by ▴ 450 • written 5.9 years ago by • 0
0
votes
2
replies
1.3k
views
JunctionSeq producing strangely large effect sizes for certain exon counting bins
junctionseq splicing RNAseq DEXSeq
written 5.9 years ago by ▴ 10
0
votes
1
reply
748
views
error in DEXSeq estimateExonFoldChanges
dexseq
6.0 years ago brown.annaleigh • 0
0
votes
2
replies
1.1k
views
A question about DEXSeq of estimateDispersions
dexseq
updated 6.1 years ago by ▴ 10 • written 6.2 years ago by • 0
0
votes
2
replies
1.5k
views
Issue/Error with DEXSeq design formulae in testForDEU function
deseq2 DEXSeq BioCParallel
updated 6.2 years ago by ★ 1.9k • written 6.2 years ago by • 0
1
vote
2
replies
2.5k
views
DEXseq error unable to find an inherited method for function NSBS for signature CompressedIntegerList
Dexseq
updated 3.2 years ago by ▴ 10 • written 6.3 years ago by ▴ 10
0
votes
2
replies
1.2k
views
DEXSeq error in dexseq_count.py. ValueError: need more than 4 values to unpack
DEXSeq
updated 6.4 years ago by ★ 3.8k • written 6.4 years ago by • 0
4
votes
1
reply
1.3k
views
Print Differentially Expressed Exons From Dexseq Results
DEXSeq RNA-Seq
updated 6.4 years ago by ★ 1.9k • written 6.4 years ago by ▴ 10
2
votes
3
replies
1.6k
views
exonicParts vs. disjoinExons inconsistency in usage for DEXSeq - bug?
DEXSeq
updated 6.5 years ago by 16k • written 6.5 years ago by ▴ 20
0
votes
6
replies
2.3k
views
DEXSeq dispersion outlier
DEXSeq dispersion pvalue
6.5 years ago fiona.dick91 ▴ 60
2
votes
3
replies
1.5k
views
null model and DEXSeqDataSet object in DEXSEQ
deseq2 dexseq
6.5 years ago gv ▴ 40
2
votes
6
replies
1.8k
views
estimateDispersions calculation for > 500,000 exons for 2 conditions taking forever
deseq2 dexseq
6.5 years ago gv ▴ 40
1
vote
6
replies
1.9k
views
How to install DEXSeq on R 3.4.4
DEXSEq Linux
updated 6.5 years ago by ★ 1.9k • written 6.5 years ago by ▴ 10
1
vote
1
reply
1.8k
views
rnaseqDTU log2fold change DEXSeq
DEXSeq DTU salmon rnaseqDTU foldchange
updated 6.5 years ago by 43k • written 6.8 years ago by ▴ 60
0
votes
11
replies
2.3k
views
Issue during transcript variant analysis using rnaseqDTU-DRIMseq-DEXseq.
rnaseqDTU DRIMseq DEXseq rna-seq
6.6 years ago saddamhusain77 • 0
0
votes
2
replies
1.2k
views
DEXSeq With Reduced Annotations
dexseq reduced annotation set
6.7 years ago sumeet460 • 0
1
vote
2
replies
2.0k
views
Normalized transcript/exon counts for network analysis
drimseq dexseq wgcna sva
updated 6.7 years ago by ▴ 90 • written 6.7 years ago by ▴ 30
2
votes
4
replies
2.2k
views
stageR: Error in stageWiseAdjustment
stageR rnaseqDTU DRIMSeq DEXSeq
6.8 years ago d-joester ▴ 20
0
votes
4
replies
2.4k
views
tximport: Error in medianLengthOverIsoform
tximport deseq2 dexseq
6.8 years ago d-joester ▴ 20
0
votes
1
reply
988
views
DEXSeq: controlling for cell composition
dexseq
updated 6.8 years ago by ★ 1.9k • written 6.9 years ago by • 0
0
votes
1
reply
1.3k
views
Can DEXseq be used for splicing QTL analysis?
dexseq splicing sqtl qtl
updated 6.8 years ago by ★ 1.9k • written 6.8 years ago by • 0
0
votes
3
replies
1.4k
views
How to get missing columns in DEXSeq analysis (exon usage coefficients)
dexseq dexseqalt
6.8 years ago mjrarcher ▴ 10
0
votes
1
reply
1.3k
views
Add interaction term between variables to DEXSeq design
DEXSeq interaction
6.8 years ago zhenzuo2 • 0
0
votes
0
replies
1.1k
views
DEXSeq: How to reduce compute time for estimating dispersions for large datasets.
dexseq estimatedispersions large dataset
6.8 years ago mjrarcher ▴ 10
0
votes
5
replies
1.7k
views
DEXSeq 1.26.0 running very slowly (stuck?)
dexseq
6.9 years ago Lance Parsons • 0
0
votes
7
replies
2.9k
views
DEXSeqHTML getListElement GRanges error
dexseq software error bug
updated 7.0 years ago by ▴ 140 • written 7.0 years ago by • 0
1
vote
5
replies
2.2k
views
Plotting Expression of Differential Transcripts plotDEXseq
DEXSeq StageR rnaseqDTU
updated 7.1 years ago by 43k • written 7.1 years ago by ▴ 50
0
votes
2
replies
1.4k
views
Preparation of summarizedExperiment for dexSeq
dexseq genomicalignments genomicfeatures genomicranges
7.1 years ago A ▴ 60
0
votes
0
replies
672
views
How to use DEXSeq processing whole genome (~650k exons/counting bins) and many samples? Can I process per 100 genes (or more) a batch until it covers…
dexseq
7.1 years ago slowsmile820 • 0
6
votes
6
replies
3.1k
views
Kallisto output with DEXSeq
dexseq kallisto NH_tag
updated 7.1 years ago by ★ 1.9k • written 7.1 years ago by • 0
4
votes
3
replies
2.0k
views
DEXSeq and DRIMSeq on paired samples?
DRIMSeq DEXSeq
updated 7.1 years ago by ▴ 90 • written 7.1 years ago by • 0
363 results • Page 2 of 8
Recent ...
Replies
Comment: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif by Matthew Thornton ▴ 380
WOW! Thank you so much for the information. I will do this.
Comment: "Watched Tags" are being erased rather than updated by RalphSavage99 • 0
Thanks for sharing https://github.com/Bioconductor/support.bioconductor.org/issues/112
Answer: Add additional maintainer for MOFA2 by shepherl 4.2k
These requests are best on the bioc-devel @ r-project.org or a request to maintainer @ bioconductor.org -- We would ideally need the curre…
Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Answer: Problem with the TMB plot by Kevin Blighe ★ 4.0k
Hi, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to filtering ap…
Votes
Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Awards • All
Scholar to shepherl 4.2k
Scholar to James W. MacDonald 68k
Popular Question to Daniel Cameron ▴ 40
Popular Question to Peter Hickey ▴ 760
Popular Question to edward.esiribloom • 0
Locations • All
United States, 7 minutes ago
United States, 14 minutes ago
Pittsburgh, United States, 29 minutes ago
United States, 1 hour ago
The city by the bay, 2 hours ago
Traffic: 4533 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