Showing : DEXseq • reset
0
votes
31
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3.1k
views
Error in find DEXSeq package
deseq dexseq
7.9 years ago engr.yahya602 • 0
1
vote
23
replies
1.6k
views
Sample label swap in HTML results
dexseq dexseqhtml
updated 5.7 years ago by ★ 1.8k • written 5.7 years ago by • 0
5
votes
18
replies
2.2k
views
Incongruencies between DEXSeq and BitSeq/Cuffdiff
dexseq bitseq cuffdiff Differential exon usage isoforms
7.8 years ago elle ▴ 10
1
vote
15
replies
2.4k
views
DEXSeq: Error in FUN(X[[i]], ...) : subscript out of bounds
dexseq
updated 3 months ago by • 0 • written 5.9 years ago by • 0
1
vote
15
replies
2.6k
views
junction.bed to GTF to use in DEXSeq
junction.bed DEXSeq
updated 7.6 years ago by ▴ 360 • written 7.6 years ago by ▴ 10
1
vote
14
replies
2.1k
views
DEXSeq - dexseq_count.py issue
dexseq dexseq_count genomicfeatures
updated 4.9 years ago by • 0 • written 5.1 years ago by • 0
0
votes
13
replies
2.5k
views
Efficiently running DEXSeq for Large Cohorts
DEXSeq DEXSeq
updated 7.7 years ago by ▴ 10 • written 10.2 years ago by ▴ 320
0
votes
12
replies
2.0k
views
problem with loading DESeq after upgrading from R 2.14 to R 2.15
GUI DESeq DEXSeq GUI DESeq DEXSeq
updated 10.9 years ago by ▴ 60 • written 10.9 years ago by ▴ 370
0
votes
12
replies
2.4k
views
Error in strsplit() : non-character argument - using DEXSeq
dexseq_count DEXSeqDataSetFromHTSeq DEXSeq strsplit
updated 6.9 years ago by ▴ 20 • written 6.9 years ago by ▴ 10
6
votes
11
replies
1.3k
views
DEXSeq errors "Error in scan( line ... did not have 3 elements" and "Error in FUN(X[[i]], ...) : subscript out of bounds" (DEXSeqDataSetFromHTSeq)
DEXSeq
updated 7 days ago by • 0 • written 11 months ago by ▴ 350
0
votes
11
replies
1.4k
views
DEXSeq- ExonCountSet
DEXSeq DEXSeq
9.0 years ago Anitha Sundararajan ▴ 140
0
votes
11
replies
1.0k
views
Issue during transcript variant analysis using rnaseqDTU-DRIMseq-DEXseq.
rnaseqDTU DRIMseq DEXseq rna-seq
4.0 years ago saddamhusain77 • 0
2
votes
10
replies
2.0k
views
Undefined log2Foldchanges within DEXSeq for significantly regulated exons
DEXSeq
8.1 years ago n.kreim ▴ 20
0
votes
9
replies
1.0k
views
DEXSeq - identical p-values for all exons in a gene
DEXSeq DEXSeq
updated 9.2 years ago by 13k • written 9.2 years ago by ★ 12k
0
votes
9
replies
1.4k
views
Where is DEXSeq bioconductor package?
DEXSeq DEXSeq
updated 11.7 years ago by 21k • written 11.7 years ago by ▴ 190
0
votes
9
replies
1.2k
views
DEXSeq: Error running dexseq_prepare_annotation.py
dexseq
updated 4.7 years ago by ★ 1.8k • written 4.7 years ago by • 0
0
votes
9
replies
1.4k
views
DEXSeq many exons marked as not testable
DEXSeq DEXSeq
updated 10.5 years ago by ▴ 10 • written 10.5 years ago by ▴ 70
0
votes
8
replies
1.9k
views
DEXSeq - too many exons in gene
Sequencing Annotation DEXSeq Sequencing Annotation DEXSeq
updated 9.1 years ago by 13k • written 9.1 years ago by ▴ 490
0
votes
8
replies
932
views
No significant hits!
dexseq
updated 6.7 years ago by ★ 1.8k • written 6.7 years ago by • 0
0
votes
8
replies
1.5k
views
DEXSeqHTML Output Trouble
dexseq dexseqhtml
7.0 years ago skasowitz • 0
1
vote
7
replies
2.4k
views
DEXSeq - Where to find and download the appropriate GTF reference file for Python Script
dexseq gtf gff reference genome
updated 5.9 years ago by 62k • written 5.9 years ago by • 0
2
votes
7
replies
1.3k
views
Is possible to apply 'svaseq' with 'DEXSeq' design in order to remove unknown batch effects ?
svaseq dexseq
updated 6.1 years ago by ★ 1.8k • written 6.1 years ago by • 0
6
votes
7
replies
1.1k
views
Strategy to perform DESeq, DEXSeq workflow
DEXSeq DESeq2
updated 2.3 years ago by 39k • written 2.4 years ago by ▴ 20
0
votes
7
replies
1.8k
views
htseq and dexseq
DEXSeq DEXSeq
updated 9.8 years ago by 13k • written 9.8 years ago by ▴ 810
2
votes
7
replies
635
views
Fold Change for rnaseq DTU
DEXSeq rnaseqDTU
19 months ago • updated 18 months ago rbenel ▴ 20
0
votes
7
replies
2.3k
views
How to retrieve exon ID and gene ID from exon coordinates?
RNASeq DEXSeq RNASeq DEXSeq
updated 10.5 years ago by 62k • written 10.5 years ago by ▴ 340
0
votes
7
replies
1.7k
views
Detecting differential usage of introns from RNA-seq data.
DEXSeq DEXSeq
updated 10.1 years ago by ★ 1.8k • written 10.1 years ago by ▴ 320
0
votes
7
replies
3.1k
views
DEXSeq Error in estimateExonFoldChanges: the matrix is either rank-deficient or indefinite
dexseq estimateexonfoldchanges
updated 7.0 years ago by ★ 1.8k • written 7.0 years ago by ▴ 20
0
votes
7
replies
1.6k
views
DEXSeqHTML getListElement GRanges error
dexseq software error bug
updated 4.3 years ago by 140 • written 4.4 years ago by • 0
4
votes
7
replies
1.2k
views
assigning differential exons to trascripts
dexseq rsem differential exon usage differential gene expression
updated 6.7 years ago by 62k • written 6.7 years ago by ★ 1.5k
0
votes
6
replies
928
views
DEXSeq error with estimateExonFoldChanges
software error dexseq R
5.5 years ago Chen • 0
5
votes
6
replies
1.8k
views
Translating model formula from DESeq to DEXSeq
dexseq linear model formula
updated 7.4 years ago by ★ 1.8k • written 7.4 years ago by ▴ 110
1
vote
6
replies
1.2k
views
Eliminating minor exon bins from DEXSeq / associated python scripts
dexseq deseq2
7.6 years ago np ▴ 10
0
votes
6
replies
1.5k
views
DEXSeq Error in FUN(X[[i]], ...) : subscript out of bounds not sure why
dexseq
6.0 years ago badribio • 0
0
votes
6
replies
1.1k
views
DEXSeq for 1 gene
DEXSeq DEXSeq
updated 9.8 years ago by ★ 1.8k • written 9.9 years ago by ▴ 120
0
votes
6
replies
1.0k
views
Where is DEXSeq bioconductor package?
DEXSeq DEXSeq
updated 11.7 years ago by ★ 3.7k • written 11.7 years ago by ▴ 970
3
votes
6
replies
3.0k
views
DEXSeq Error: unable to find an inherited method for function ‘mcols’ for signature ‘"matrix"’
DEXSeq
updated 7.0 years ago by ★ 1.8k • written 7.0 years ago by • 0
0
votes
6
replies
964
views
DEXSeq dispersion outlier
DEXSeq dispersion pvalue
3.9 years ago fiona.dick91 ▴ 10
1
vote
6
replies
1.5k
views
Error: could not find function "HTSeqCounts"
HTSeq HTSeqCounts Could not find function DEXSeq
updated 6.9 years ago by 25k • written 6.9 years ago by ▴ 10
15
votes
6
replies
2.5k
views
Reference paper or resource for limma::diffSplice and edgeR::diffSpliceDGE methods?
edgeR limma diffSplice DEXSeq
updated 6.6 years ago by ▴ 90 • written 6.6 years ago by ▴ 160
2
votes
6
replies
843
views
estimateDispersions calculation for > 500,000 exons for 2 conditions taking forever
deseq2 dexseq
3.9 years ago gv ▴ 40
6
votes
6
replies
1.6k
views
Kallisto output with DEXSeq
dexseq kallisto NH_tag
updated 4.5 years ago by ★ 1.8k • written 4.5 years ago by • 0
0
votes
6
replies
1.2k
views
DEXseq: fitDispersionFunction error
DEXSeq DEXSeq
updated 11.1 years ago by ★ 1.8k • written 11.1 years ago by ▴ 150
0
votes
6
replies
1.3k
views
DEXSeq output - count file
Annotation limma DEXSeq Annotation limma DEXSeq
updated 9.0 years ago by ▴ 310 • written 9.0 years ago by ★ 1.8k
2
votes
6
replies
2.8k
views
DEXSeq Error in lf[[1]] : subscript out of bounds
DEXSeq
7.7 years ago rahel14350 ▴ 10
0
votes
6
replies
1.1k
views
DEXseq error on estimatelog2FoldChanges
DEXSeq DEXSeq
9.1 years ago Fabrice Tourre ▴ 970
1
vote
6
replies
3.1k
views
DEXSeq: question about usage coefficient and splicing plot
dexseq
updated 2.4 years ago by ▴ 20 • written 8.0 years ago by • 0
1
vote
6
replies
913
views
How to install DEXSeq on R 3.4.4
DEXSEq Linux
updated 3.9 years ago by ★ 1.8k • written 3.9 years ago by • 0
2
votes
6
replies
1.6k
views
featureCount error - cannot identify gene_id
dexseq rsubread featureCount software error
updated 3.3 years ago by ▴ 350 • written 3.3 years ago by • 0
1
vote
6
replies
902
views
Differential Transcript Usage: complex factorial design
edgeR DEXSeq IsoformSwitchAnalyzeR DTU
updated 21 months ago by ▴ 120 • written 23 months ago by ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: Help with Error in DiffBind by Chris • 0
Thank you for your reply! dba.count(bParallel=FALSE) Error: DBA object missing! So I try to use this: dba(DBA,mask, minOverlap=…
Answer: Access modalities in h5 files to extract expression and atac data from 10xh5 by James W. MacDonald 62k
This support site is intended to help people with questions about Bioconductor packages, and `Signac` is not a Bioconductor package. You co…
Comment: Sudden error with KEGG analysis using gometh by James W. MacDonald 62k
For KEGG, yes. You previously couldn't get results, and now you can, so by definition I would expect differences. As for GO, the only chang…
Comment: Sudden error with KEGG analysis using gometh by pedro-marra ▴ 10
I updated the packages that generate the KEGG tables (and also GO tables) and the tables were really different from what I had previously g…
Comment: Sudden error with KEGG analysis using gometh by pedro-marra ▴ 10
I updated the packages that generate the KEGG tables (and also GO tables) and the tables were really different from what I had previously g…
Votes
Comment: Help with Error in DiffBind
GSVA: questions about the bootstrap p-value
Comment: Multifactorial Design for DESEQ2
Answer: Multifactorial Design for DESEQ2
Use scran's normalization by deconvolution for each individual sample or over all samples
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