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Comment: C: LIMMA on RT-PCR data
updated 6.6 years ago by 52k • written 11.2 years ago by ★ 7.9k
0
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0
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690
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Comment: C: DESeq Timepoint Design (using Baseline as reference)
6.7 years ago Ryan C. Thompson ★ 7.9k
2
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1
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1.4k
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Comment: C: How to obtain a normalised expression matrix from read counts and scaling factor
6.7 years ago Ryan C. Thompson ★ 7.9k
4
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1
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1.4k
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Answer: A: How to obtain a normalised expression matrix from read counts and scaling factor
6.7 years ago Ryan C. Thompson ★ 7.9k
1
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1
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1.8k
views
Comment: C: Calling svaseq() multiple times
6.7 years ago Ryan C. Thompson ★ 7.9k
2
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1
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1.8k
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Answer: A: Calling svaseq() multiple times
6.7 years ago Ryan C. Thompson ★ 7.9k
1
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1
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4.5k
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Comment: C: Batch Correction with only one sample in a batch
6.7 years ago Ryan C. Thompson ★ 7.9k
2
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0
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4.5k
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Comment: C: Batch Correction with only one sample in a batch
6.7 years ago Ryan C. Thompson ★ 7.9k
1
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2
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4.5k
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Answer: A: Batch Correction with only one sample in a batch
6.7 years ago Ryan C. Thompson ★ 7.9k
0
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2
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1.3k
views
Answer: A: Handling diploid vs haploid reference genomes in salmon > DESeq2 analysis
6.7 years ago Ryan C. Thompson ★ 7.9k
0
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0
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7.9k
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Comment: C: Filtering step for differential analysis in edgeR
6.7 years ago Ryan C. Thompson ★ 7.9k
0
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1
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7.9k
views
Comment: C: Filtering step for differential analysis in edgeR
6.7 years ago Ryan C. Thompson ★ 7.9k
1
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1
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7.9k
views
Answer: A: Filtering step for differential analysis in edgeR
6.7 years ago Ryan C. Thompson ★ 7.9k
0
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1
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3.5k
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Comment: C: Robust transformation of raw RNA-seq counts for exploratory data analysis and hi
6.7 years ago Ryan C. Thompson ★ 7.9k
0
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0
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28k
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Comment: C: Import bamfiles for RNAsequencing analysis
6.7 years ago Ryan C. Thompson ★ 7.9k
0
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1
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28k
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Comment: C: Import bamfiles for RNAsequencing analysis
6.7 years ago Ryan C. Thompson ★ 7.9k
4
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0
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1.2k
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Answer: A: Question on performing/interpretation results ANOVA-like analysis using limma
6.7 years ago Ryan C. Thompson ★ 7.9k
0
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1
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6.1k
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Comment: C: Filtering for ATAC-seq
6.7 years ago Ryan C. Thompson ★ 7.9k
0
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1
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6.1k
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Comment: C: Filtering for ATAC-seq
6.7 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.3k
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Answer: A: Analyzing a subgroups of samples, which result should I trust
6.7 years ago Ryan C. Thompson ★ 7.9k
1
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1
reply
1.4k
views
Answer: A: Cannot install Rhtslib on Mac OS 10.13
6.8 years ago Ryan C. Thompson ★ 7.9k
2
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3
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1.4k
views
Cannot install Rhtslib on Mac OS 10.13
rhstlib installation compilation error
6.8 years ago Ryan C. Thompson ★ 7.9k
1
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0
replies
1.4k
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Answer: A: Information regarding the (minimum) number of genes needed to analyse with DESeq
6.8 years ago Ryan C. Thompson ★ 7.9k
0
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0
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1.3k
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Comment: C: How to write a preprocess.reads function for summarizeOverlaps that requires dif
6.8 years ago Ryan C. Thompson ★ 7.9k
0
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0
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1.1k
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Comment: C: Limma model for paired and pool together
6.8 years ago Ryan C. Thompson ★ 7.9k
1
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1
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1.1k
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Answer: A: Limma model for paired and pool together
6.8 years ago Ryan C. Thompson ★ 7.9k
2
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1
reply
1.1k
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Answer: A: read counts for gene families
6.8 years ago Ryan C. Thompson ★ 7.9k
0
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0
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1.1k
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Comment: C: read counts for gene families
6.8 years ago Ryan C. Thompson ★ 7.9k
2
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2
replies
1.3k
views
How to write a preprocess.reads function for summarizeOverlaps that requires different logic for paired and single end reads?
summarizeoverlaps genomicalignments
updated 6.8 years ago by ★ 6.8k • written 6.8 years ago by ★ 7.9k
0
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1
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679
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Answer: A: normalisation of count data
6.8 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
2.0k
views
Answer: A: Separate listing of up-regulated and down-regulated genes in edgeR DGE results.
6.8 years ago Ryan C. Thompson ★ 7.9k
3
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1
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1.8k
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Answer: A: Repeated Measures, Within-Subject, Between-Groups RNAseq Analysis
6.8 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
1.5k
views
Answer: A: Trying to simplify Interaction analysis with edger, and propably failing to do s
6.8 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.5k
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Comment: C: Trying to simplify Interaction analysis with edger, and propably failing to do s
6.8 years ago Ryan C. Thompson ★ 7.9k
0
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2
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1.4k
views
Differential expression testing for groups with unequal variances/dispersions?
edgeR edgeR
updated 6.8 years ago by ▴ 10 • written 11.7 years ago by ★ 7.9k
0
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1
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3.5k
views
Comment: C: Invitation to submit articles to the Bioconductor gateway on F1000Research
6.8 years ago Ryan C. Thompson ★ 7.9k
0
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0
replies
2.2k
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Comment: C: limma - Multi-level Experiments - time course data
6.8 years ago Ryan C. Thompson ★ 7.9k
4
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1
reply
1.3k
views
Answer: A: How does the function model.matrix (to define experimental design) really works
6.8 years ago Ryan C. Thompson ★ 7.9k
1
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0
replies
1.3k
views
Answer: A: How is the best way to construct the model.matrix and the lmfit comparing longit
6.9 years ago Ryan C. Thompson ★ 7.9k
1
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1
reply
1.7k
views
Comment: C: Fitting Gamma GLMs for examining differential expression
6.9 years ago Ryan C. Thompson ★ 7.9k
0
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1
reply
1.6k
views
Comment: C: Unmix() function in DeSeq capabilities
6.9 years ago Ryan C. Thompson ★ 7.9k
2
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1
reply
2.9k
views
Answer: A: [DESeq2] Odd patterns in MA plot
6.9 years ago Ryan C. Thompson ★ 7.9k
4
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1
reply
1.7k
views
Answer: A: Fitting Gamma GLMs for examining differential expression
6.9 years ago Ryan C. Thompson ★ 7.9k
0
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1
reply
2.3k
views
Comment: C: How to handle multi-TSS genes in Repitools?
6.9 years ago Ryan C. Thompson ★ 7.9k
0
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3
replies
2.3k
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How to handle multi-TSS genes in Repitools?
repitools promoter tss annotation
6.9 years ago Ryan C. Thompson ★ 7.9k
4
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1
reply
2.3k
views
Answer: A: edger glmQLFit mix glmLRT
6.9 years ago Ryan C. Thompson ★ 7.9k
1
vote
9
replies
2.1k
views
Help running the nondetects::qpcrImpute on my data?
nondetects software error
updated 6.9 years ago by • 0 • written 7.0 years ago by ★ 7.9k
0
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0
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846
views
Comment: C: Normalize for changes in one direction
6.9 years ago Ryan C. Thompson ★ 7.9k
2
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0
replies
1.0k
views
Answer: A: Minimum in Voomplot
7.0 years ago Ryan C. Thompson ★ 7.9k
0
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1
reply
3.1k
views
Comment: C: Removing batch effects from microarray data based on only a subset of samples
7.0 years ago Ryan C. Thompson ★ 7.9k
819 results • Page 2 of 17
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