Showing : rnaseqDTU • reset
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RNA-seq: TPM batch effect correction
rnaseqDTU Normalization
updated 3 months ago by 68k • written 3 months ago by • 0
1
vote
1
reply
833
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Considerations behind the choice of RNAseq Differential Expression Analysis Tools
fishpond DESeq2 rnaseqDTU
updated 9 months ago by 43k • written 9 months ago by • 0
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2
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1.1k
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Inconsistent Dirichlet-multinominal coefficient and Beta-Binominal coefficient for a transcript in DTU analysis.
rnaseqDTU DRIMSeq
3.3 years ago wangziwei0010 ▴ 10
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5
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1.8k
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Separate exogenous from endogenous transcripts using Salmon RNAseq DTU
rnaseqDTU
3.5 years ago • updated 3.4 years ago ksong ▴ 10
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7
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2.0k
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Fold Change for rnaseq DTU
DEXSeq rnaseqDTU
4.1 years ago rbenel ▴ 50
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5
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1.9k
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DTU analysis with tximport-DRIM-Seq-DEXSeq-stageR workflow starting from StrinTie output
RNA-seq DRIMSeq DEXSeq rnaseqDTU
4.2 years ago bioinformatic_trainee ▴ 10
0
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917
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Plotting results of rnaseqDTU
rnaseqDTU
updated 4.9 years ago by 43k • written 4.9 years ago by ▴ 20
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1
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1.0k
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How to obtain the specific genelists mentioned in the RNASeq DTU workflow?
rnaseqdtu RNASeq DEXSeq DESeq2
updated 5.3 years ago by 43k • written 5.3 years ago by ▴ 10
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1.0k
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rnaseqDTU Workflow, Precision estimation error.
rnaseqDTU
updated 5.4 years ago by 43k • written 5.4 years ago by • 0
2
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2
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1.2k
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Statistics for within-condition transcript abundance comparisons
rnaseqDTU
updated 6.1 years ago by 43k • written 6.1 years ago by • 0
1
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3
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2.2k
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Visualization for DE transcripts
rnaseqdtu
6.3 years ago rbenel ▴ 50
1
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1
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1.8k
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rnaseqDTU log2fold change DEXSeq
DEXSeq DTU salmon rnaseqDTU foldchange
updated 6.5 years ago by 43k • written 6.7 years ago by ▴ 60
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11
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2.2k
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Issue during transcript variant analysis using rnaseqDTU-DRIMseq-DEXseq.
rnaseqDTU DRIMseq DEXseq rna-seq
6.5 years ago saddamhusain77 • 0
16
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25
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4.5k
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dtuScaledTPM vs lengthScaledTPM in DTU analysis
tximport dtu salmon TPM rnaseqDTU
written 6.5 years ago by ▴ 60
2
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4
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2.2k
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stageR: Error in stageWiseAdjustment
stageR rnaseqDTU DRIMSeq DEXSeq
6.7 years ago d-joester ▴ 20
2
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8
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1.8k
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stageR following DEXSeq two-stage analysis
rnaseqdtu
6.7 years ago rbenel ▴ 50
3
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9
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3.2k
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Differential transcript expression (DTE) analysis
rnaseqDTU dtu
updated 6.7 years ago by 43k • written 6.7 years ago by ▴ 50
2
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2
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1.5k
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rnaseqDTU DTU workflow - pots-hoc Filter
DTU DRIMSeq rnaseqDTU
updated 6.7 years ago by 43k • written 6.7 years ago by ▴ 60
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3
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1.5k
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Post-hoc filtering on the standard deviation in proportions
drimseq rnaseqdtu stager
updated 6.9 years ago by 43k • written 6.9 years ago by • 0
1
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5
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2.1k
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Plotting Expression of Differential Transcripts plotDEXseq
DEXSeq StageR rnaseqDTU
updated 7.0 years ago by 43k • written 7.0 years ago by ▴ 50
20 results • Page 1 of 1
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Replies
Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k
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 ★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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