Showing : dexseq • reset
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Exonic part number of genes on the reverse strand
DEXSeq DEXSeq
12.5 years ago Guest User ★ 13k
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1.2k
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DEXSeq: PlotMA issues
graph DESeq DEXSeq graph DESeq DEXSeq
12.5 years ago Alejandro Reyes ★ 1.9k
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2
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1.2k
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a question in merging sam files for DEXSeq
DEXSeq DEXSeq
updated 12.5 years ago by ★ 3.8k • written 12.5 years ago by ▴ 80
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1
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1.1k
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DEXSeq troubles
DEXSeq DEXSeq
updated 12.5 years ago by ★ 1.9k • written 12.5 years ago by ▴ 150
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3
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2.9k
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DEXSeq Issue
Alignment Annotation GO Homo sapiens TranscriptDb PROcess GenomicFeatures DEXSeq Alignment
updated 12.5 years ago by 43k • written 12.5 years ago by ▴ 150
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6
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2.0k
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DEXSeq for 1 gene
DEXSeq DEXSeq
updated 12.5 years ago by ★ 1.9k • written 12.5 years ago by ▴ 120
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813
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DEXSeq: Creating sample
DEXSeq DEXSeq
12.5 years ago Bio152 ▴ 150
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1
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996
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DEXSeq User Friendly Guide (Start to Finish)
DEXSeq DEXSeq
updated 12.5 years ago by ★ 13k • written 12.5 years ago by ▴ 150
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2
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3.3k
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DEXSeq error: Count files do not correspond to the flattened annotation file
Annotation GO DEXSeq Annotation GO DEXSeq
updated 12.5 years ago by ★ 3.8k • written 12.5 years ago by ▴ 50
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4
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1.9k
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DEXSeq on two-exon genes: how to specify a formula without redundant terms
safe DEXSeq safe DEXSeq
12.5 years ago Narayanan, Manikandan NIH/NIAID [E] ▴ 60
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1.3k
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DEXSeq: subsetting ExonCountSet ?
DESeq DEXSeq DESeq DEXSeq
updated 12.5 years ago by ★ 13k • written 12.5 years ago by ▴ 50
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3
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3.9k
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DESeq versus CuffDiff2 for RNA-seq expression quantification in parasite-infected blood
Normalization DESeq DEXSeq Normalization DESeq DEXSeq
updated 12.6 years ago by ★ 3.8k • written 12.6 years ago by ▴ 40
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1.2k
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DEXSeq html report error
puma DEXSeq puma DEXSeq
12.6 years ago Natasha ▴ 440
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2.3k
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illegal operand when I run DEXSeq
DEXSeq DEXSeq
updated 12.7 years ago by ★ 1.3k • written 12.7 years ago by ★ 13k
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4
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2.0k
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illegal operand when I run DEXSeq
DEXSeq DEXSeq
updated 12.7 years ago by ★ 13k • written 12.7 years ago by ★ 1.3k
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0
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1.2k
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aggregate genes in DEXSeq
DEXSeq DEXSeq
12.7 years ago Alejandro Reyes ★ 1.9k
0
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7
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2.7k
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Detecting differential usage of introns from RNA-seq data.
DEXSeq DEXSeq
updated 12.8 years ago by ★ 1.9k • written 12.8 years ago by ▴ 320
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4
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1.2k
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DEXseq: several "1" and "NA" in padjust column
DEXSeq DEXSeq
updated 12.8 years ago by ★ 13k • written 12.8 years ago by ▴ 140
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1
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1.3k
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DEXSeq package - read.HTSeqCount function error
Annotation DEXSeq Annotation DEXSeq
updated 12.8 years ago by ★ 13k • written 12.8 years ago by ▴ 20
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3
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1.5k
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DEXSeq: building exon count set
DESeq DEXSeq DESeq DEXSeq
updated 12.8 years ago by ★ 1.9k • written 12.8 years ago by ▴ 140
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1.3k
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DEXSeq and parallel, orphan processes.
GO DEXSeq GO DEXSeq
updated 12.8 years ago by ★ 1.9k • written 12.8 years ago by ▴ 30
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1
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1.2k
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DEXSeq package - read.HTSeqCount function error
DEXSeq DEXSeq
updated 12.8 years ago by ★ 1.9k • written 12.8 years ago by ▴ 20
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4
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1.2k
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DEXSeq all p-values are 1
GO DEXSeq GO DEXSeq
updated 12.9 years ago by ★ 13k • written 12.9 years ago by ★ 13k
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1.6k
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get synthetic exon dataset with easyRNASeq
RNASeq Alignment Annotation Normalization GO PROcess GenomicRanges DEXSeq easyRNASeq GO
13.0 years ago delhomme@embl.de ★ 1.2k
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3
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1.3k
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DEXSeq offset term
Normalization PROcess DEXSeq Normalization PROcess DEXSeq
updated 13.1 years ago by ★ 1.9k • written 13.1 years ago by ★ 13k
1
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2
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1.4k
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DEXSeq: Difference in splicing
graph DEXSeq graph DEXSeq
updated 13.2 years ago by ★ 1.9k • written 13.2 years ago by ★ 13k
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9
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2.6k
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DEXSeq many exons marked as not testable
DEXSeq DEXSeq
updated 13.2 years ago by ▴ 10 • written 13.2 years ago by ▴ 70
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7
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3.5k
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How to retrieve exon ID and gene ID from exon coordinates?
RNASeq DEXSeq RNASeq DEXSeq
updated 13.2 years ago by 68k • written 13.2 years ago by ▴ 340
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1
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4.5k
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RNA-seq analysis and two-way ANOVAs
edgeR baySeq DEGseq DESeq DEXSeq edgeR baySeq DEGseq DESeq DEXSeq
updated 13.2 years ago by 53k • written 13.2 years ago by ▴ 160
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1.2k
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DEXSeq: Error: all(unlist(lapply(design, class)) == "factor") is not TRUE
DEXSeq DEXSeq
updated 13.3 years ago by ★ 1.9k • written 13.3 years ago by ▴ 90
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4
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1.1k
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error in DEXSeq fitDispersionFunction()
DEXSeq DEXSeq
updated 13.3 years ago by ▴ 120 • written 13.3 years ago by ★ 1.9k
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1
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1.3k
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multicore and DEXSeq
DEXSeq DEXSeq
updated 13.3 years ago by ▴ 50 • written 13.3 years ago by ★ 1.9k
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1
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1.1k
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clarification on DEXSeq output
DEXSeq DEXSeq
updated 13.3 years ago by ★ 3.8k • written 13.3 years ago by ▴ 190
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1
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990
views
error in DEXSeq version 1.3.13
DEXSeq DEXSeq
updated 13.3 years ago by ★ 1.9k • written 13.3 years ago by ▴ 190
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2
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2.1k
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counts from HTSeq vs DEXSeq
DEXSeq DEXSeq
updated 13.3 years ago by ★ 3.8k • written 13.3 years ago by ▴ 190
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1
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2.2k
views
Pasilla Package
DEXSeq DEXSeq
updated 13.4 years ago by ★ 1.9k • written 13.4 years ago by ★ 13k
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4
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1.9k
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DEXSeq error
DEXSeq DEXSeq
updated 13.4 years ago by ★ 1.9k • written 13.4 years ago by ▴ 140
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1
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997
views
DEXSeq question
DEXSeq DEXSeq
updated 13.4 years ago by ★ 1.9k • written 13.4 years ago by ▴ 190
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4
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1.9k
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A question with DEXSeq package: inconsistency between normalized counts vs. fitted expression, fitted splicing or fold changes
Cancer DEXSeq Cancer DEXSeq
updated 13.4 years ago by ★ 1.9k • written 13.4 years ago by ▴ 40
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1
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984
views
RnaSeqTutorial Package
Annotation BSgenome BSgenome DESeq DEXSeq Annotation BSgenome BSgenome DESeq DEXSeq
updated 13.4 years ago by ★ 13k • written 13.4 years ago by ★ 13k
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3
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2.8k
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interpreting DEXSeq output
DEXSeq DEXSeq
updated 13.4 years ago by ★ 1.9k • written 13.4 years ago by ▴ 160
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4
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1.7k
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DEXSeq package: Error in DEXSeqHTML
DEXSeq DEXSeq
updated 13.5 years ago by ★ 1.9k • written 13.5 years ago by ▴ 50
0
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2
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2.4k
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DEXSeq filtering
DEXSeq DEXSeq
updated 13.5 years ago by ★ 3.8k • written 13.5 years ago by ▴ 370
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0
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835
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DESeq error thrown during estimateDispersions w/ coxReid method
DESeq DEXSeq DESeq DEXSeq
13.5 years ago Simon Anders ★ 3.8k
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0
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906
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DESeq error thrown during estimateDispersions w/ coxReid method
Cancer DEXSeq Cancer DEXSeq
13.6 years ago Steve Lianoglou ★ 13k
0
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12
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3.1k
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problem with loading DESeq after upgrading from R 2.14 to R 2.15
GUI DESeq DEXSeq GUI DESeq DEXSeq
updated 13.6 years ago by ▴ 60 • written 13.6 years ago by ▴ 370
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3
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1.5k
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multifactorial analysis
DEXSeq DEXSeq
updated 13.6 years ago by 53k • written 13.6 years ago by ▴ 810
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2
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1.7k
views
DEXSeq error during fold change calculation
Alignment DEXSeq Alignment DEXSeq
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ★ 13k
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1
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1.8k
views
DEXSeq with no biological replicate?
DEXSeq DEXSeq
updated 13.6 years ago by ★ 3.8k • written 13.6 years ago by ▴ 230
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2
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3.1k
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DESeq vs DEXSeq
RNASeq Annotation DESeq DEXSeq RNASeq Annotation DESeq DEXSeq
updated 13.7 years ago by ★ 3.8k • written 13.7 years ago by ▴ 280
363 results • Page 7 of 8
Recent ...
Replies
Answer: mzR-Rcpp compiler version issue by Laurent Gatto 1.6k
There are two issues here. First, a warning about mzR, that you can safely ignore. It tells you that mzR was compiled using a different …
Comment: Identifying differentially expressed genes in individual samples from a large co by jamie.gearing ▴ 60
Great. Yes, something descriptive is probably good enough, even if the p-values themselves are not so rigorous. Thanks very much Gordon!
Comment: Co-occurrence Network Analysis between Algae and Bacteria by Stefano Mangiola ▴ 40
Just a placeholder, that we are extending `sccomp` to co-occurrence analyses. Yours could be a good use-case to test first. We will be in t…
Answer: DESeq2 design for haplotype MPRA by aimesd808 • 0
I appreciate you telling me about this. Now it's crystal plain to me. Publish this: https://support.bioconductor.org/p/9162649/
Answer: Extract snp information from genomic regions with biomaRt -> "oaries_snp" by Kevin Blighe ★ 4.0k
My sincere apologies that my colleagues had ignored your question. The error occurs because the "chromosomal_region" filter is not valid…
Votes
Answer: Identifying differentially expressed genes in individual samples from a large co
Answer: Identifying differentially expressed genes in individual samples from a large co
Bioconductor Seminar Series - Dec 2: Deep-learning Gene Perturbation Effect Prediction
Comment: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Comment: Error installing Seqinfo
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