Showing : DEXSeq • reset
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Exonic part number of genes on the reverse strand
DEXSeq DEXSeq
12.3 years ago Guest User ★ 13k
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DEXSeq: PlotMA issues
graph DESeq DEXSeq graph DESeq DEXSeq
12.3 years ago Alejandro Reyes ★ 1.9k
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1.2k
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a question in merging sam files for DEXSeq
DEXSeq DEXSeq
updated 12.3 years ago by ★ 3.8k • written 12.3 years ago by ▴ 80
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1.1k
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DEXSeq troubles
DEXSeq DEXSeq
updated 12.3 years ago by ★ 1.9k • written 12.4 years ago by ▴ 150
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3
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2.8k
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DEXSeq Issue
Alignment Annotation GO Homo sapiens TranscriptDb PROcess GenomicFeatures DEXSeq Alignment
updated 12.4 years ago by 43k • written 12.4 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 12.4 years ago by ★ 1.9k • written 12.4 years ago by ▴ 120
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801
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DEXSeq: Creating sample
DEXSeq DEXSeq
12.4 years ago Bio152 ▴ 150
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1
reply
974
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DEXSeq User Friendly Guide (Start to Finish)
DEXSeq DEXSeq
updated 12.4 years ago by ★ 13k • written 12.4 years ago by ▴ 150
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2
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3.2k
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DEXSeq error: Count files do not correspond to the flattened annotation file
Annotation GO DEXSeq Annotation GO DEXSeq
updated 12.4 years ago by ★ 3.8k • written 12.4 years ago by ▴ 50
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4
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1.8k
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DEXSeq on two-exon genes: how to specify a formula without redundant terms
safe DEXSeq safe DEXSeq
12.4 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 12.4 years ago by ★ 13k • written 12.4 years ago by ▴ 50
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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 12.5 years ago by ★ 3.8k • written 12.5 years ago by ▴ 40
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1.2k
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DEXSeq html report error
puma DEXSeq puma DEXSeq
12.5 years ago Natasha ▴ 440
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2.3k
views
illegal operand when I run DEXSeq
DEXSeq DEXSeq
updated 12.6 years ago by ★ 1.3k • written 12.6 years ago by ★ 13k
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4
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1.9k
views
illegal operand when I run DEXSeq
DEXSeq DEXSeq
updated 12.6 years ago by ★ 13k • written 12.6 years ago by ★ 1.3k
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1.2k
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aggregate genes in DEXSeq
DEXSeq DEXSeq
12.6 years ago Alejandro Reyes ★ 1.9k
0
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7
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2.6k
views
Detecting differential usage of introns from RNA-seq data.
DEXSeq DEXSeq
updated 12.7 years ago by ★ 1.9k • written 12.7 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 12.7 years ago by ★ 13k • written 12.7 years ago by ▴ 140
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1
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1.3k
views
DEXSeq package - read.HTSeqCount function error
Annotation DEXSeq Annotation DEXSeq
updated 12.7 years ago by ★ 13k • written 12.7 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 12.7 years ago by ★ 1.9k • written 12.7 years ago by ▴ 140
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2
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1.2k
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DEXSeq and parallel, orphan processes.
GO DEXSeq GO DEXSeq
updated 12.7 years ago by ★ 1.9k • written 12.7 years ago by ▴ 30
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1
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1.2k
views
DEXSeq package - read.HTSeqCount function error
DEXSeq DEXSeq
updated 12.7 years ago by ★ 1.9k • written 12.7 years ago by ▴ 20
0
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4
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1.2k
views
DEXSeq all p-values are 1
GO DEXSeq GO DEXSeq
updated 12.8 years ago by ★ 13k • written 12.8 years ago by ★ 13k
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0
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1.5k
views
get synthetic exon dataset with easyRNASeq
RNASeq Alignment Annotation Normalization GO PROcess GenomicRanges DEXSeq easyRNASeq GO
12.9 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 13.0 years ago by ★ 1.9k • written 13.0 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 13.0 years ago by ★ 1.9k • written 13.0 years ago by ★ 13k
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9
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2.5k
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DEXSeq many exons marked as not testable
DEXSeq DEXSeq
updated 13.0 years ago by ▴ 10 • written 13.0 years ago by ▴ 70
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7
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3.4k
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How to retrieve exon ID and gene ID from exon coordinates?
RNASeq DEXSeq RNASeq DEXSeq
updated 13.1 years ago by 68k • written 13.1 years ago by ▴ 340
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1
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4.5k
views
RNA-seq analysis and two-way ANOVAs
edgeR baySeq DEGseq DESeq DEXSeq edgeR baySeq DEGseq DESeq DEXSeq
updated 13.1 years ago by 53k • written 13.1 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 13.2 years ago by ★ 1.9k • written 13.2 years ago by ▴ 90
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4
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1.1k
views
error in DEXSeq fitDispersionFunction()
DEXSeq DEXSeq
updated 13.2 years ago by ▴ 120 • written 13.2 years ago by ★ 1.9k
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1
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1.2k
views
multicore and DEXSeq
DEXSeq DEXSeq
updated 13.2 years ago by ▴ 50 • written 13.2 years ago by ★ 1.9k
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1
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1.1k
views
clarification on DEXSeq output
DEXSeq DEXSeq
updated 13.2 years ago by ★ 3.8k • written 13.2 years ago by ▴ 190
0
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1
reply
975
views
error in DEXSeq version 1.3.13
DEXSeq DEXSeq
updated 13.2 years ago by ★ 1.9k • written 13.2 years ago by ▴ 190
0
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2
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2.1k
views
counts from HTSeq vs DEXSeq
DEXSeq DEXSeq
updated 13.2 years ago by ★ 3.8k • written 13.2 years ago by ▴ 190
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1
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2.1k
views
Pasilla Package
DEXSeq DEXSeq
updated 13.2 years ago by ★ 1.9k • written 13.2 years ago by ★ 13k
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4
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1.8k
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DEXSeq error
DEXSeq DEXSeq
updated 13.3 years ago by ★ 1.9k • written 13.3 years ago by ▴ 140
0
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1
reply
970
views
DEXSeq question
DEXSeq DEXSeq
updated 13.3 years ago by ★ 1.9k • written 13.3 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 13.3 years ago by ★ 1.9k • written 13.3 years ago by ▴ 40
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1
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966
views
RnaSeqTutorial Package
Annotation BSgenome BSgenome DESeq DEXSeq Annotation BSgenome BSgenome DESeq DEXSeq
updated 13.3 years ago by ★ 13k • written 13.3 years ago by ★ 13k
1
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3
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2.8k
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interpreting DEXSeq output
DEXSeq DEXSeq
updated 13.3 years ago by ★ 1.9k • written 13.3 years ago by ▴ 160
0
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4
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1.7k
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DEXSeq package: Error in DEXSeqHTML
DEXSeq DEXSeq
updated 13.3 years ago by ★ 1.9k • written 13.3 years ago by ▴ 50
0
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2
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2.3k
views
DEXSeq filtering
DEXSeq DEXSeq
updated 13.4 years ago by ★ 3.8k • written 13.4 years ago by ▴ 370
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0
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820
views
DESeq error thrown during estimateDispersions w/ coxReid method
DESeq DEXSeq DESeq DEXSeq
13.4 years ago Simon Anders ★ 3.8k
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0
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892
views
DESeq error thrown during estimateDispersions w/ coxReid method
Cancer DEXSeq Cancer DEXSeq
13.5 years ago Steve Lianoglou ★ 13k
0
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12
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3.1k
views
problem with loading DESeq after upgrading from R 2.14 to R 2.15
GUI DESeq DEXSeq GUI DESeq DEXSeq
updated 13.5 years ago by ▴ 60 • written 13.5 years ago by ▴ 370
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3
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1.5k
views
multifactorial analysis
DEXSeq DEXSeq
updated 13.5 years ago by 53k • written 13.5 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 13.5 years ago by ★ 13k • written 13.5 years ago by ★ 13k
0
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1
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1.8k
views
DEXSeq with no biological replicate?
DEXSeq DEXSeq
updated 13.5 years ago by ★ 3.8k • written 13.5 years ago by ▴ 230
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2
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3.1k
views
DESeq vs DEXSeq
RNASeq Annotation DESeq DEXSeq RNASeq Annotation DESeq DEXSeq
updated 13.5 years ago by ★ 3.8k • written 13.5 years ago by ▴ 280
363 results • Page 7 of 8
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Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 4.9k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by ATpoint ★ 4.9k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Comment: R course in Boston December 19-20 by eja.gaasa2e.r.m • 0
The upcoming XLSolutions R course in Boston on December 19 20 is a great opportunity to enhance your data skills. Whether you re a beginner…
Answer: Gatins Set error by James W. MacDonald 68k
`GatingSet` isn't a function in `flowCore`. It is however in `flowWorkspace`, which you would need to load first.
Answer: How to model DE for RNA-seq in concordant monozygotic twins? by Gordon Smyth 53k
Your question is more about science than it is about software syntax, and I can't give advice about how to conduct a scientific analysis, n…
Votes
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
Answer: ordinary t from limma [was: How would I normally compare swirl?]
Comment: readDNAStringSet with non DNA characters
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
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