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Comment: C: LIMMA on RT-PCR data
updated 7.6 years ago by 53k • written 12.2 years ago by ★ 7.9k
0
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0
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841
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Comment: C: DESeq Timepoint Design (using Baseline as reference)
7.7 years ago Ryan C. Thompson ★ 7.9k
2
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1
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1.8k
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Comment: C: How to obtain a normalised expression matrix from read counts and scaling factor
7.7 years ago Ryan C. Thompson ★ 7.9k
4
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1
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1.8k
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Answer: A: How to obtain a normalised expression matrix from read counts and scaling factor
7.7 years ago Ryan C. Thompson ★ 7.9k
1
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1
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2.2k
views
Comment: C: Calling svaseq() multiple times
7.7 years ago Ryan C. Thompson ★ 7.9k
2
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1
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2.2k
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Answer: A: Calling svaseq() multiple times
7.7 years ago Ryan C. Thompson ★ 7.9k
1
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1
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5.4k
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Comment: C: Batch Correction with only one sample in a batch
7.7 years ago Ryan C. Thompson ★ 7.9k
2
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0
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5.4k
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Comment: C: Batch Correction with only one sample in a batch
7.7 years ago Ryan C. Thompson ★ 7.9k
1
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2
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5.4k
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Answer: A: Batch Correction with only one sample in a batch
7.7 years ago Ryan C. Thompson ★ 7.9k
0
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2
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1.7k
views
Answer: A: Handling diploid vs haploid reference genomes in salmon > DESeq2 analysis
7.7 years ago Ryan C. Thompson ★ 7.9k
0
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0
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11k
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Comment: C: Filtering step for differential analysis in edgeR
7.7 years ago Ryan C. Thompson ★ 7.9k
0
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1
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11k
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Comment: C: Filtering step for differential analysis in edgeR
7.7 years ago Ryan C. Thompson ★ 7.9k
1
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1
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11k
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Answer: A: Filtering step for differential analysis in edgeR
7.7 years ago Ryan C. Thompson ★ 7.9k
0
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1
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4.3k
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Comment: C: Robust transformation of raw RNA-seq counts for exploratory data analysis and hi
7.7 years ago Ryan C. Thompson ★ 7.9k
0
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0
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30k
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Comment: C: Import bamfiles for RNAsequencing analysis
7.7 years ago Ryan C. Thompson ★ 7.9k
0
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1
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30k
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Comment: C: Import bamfiles for RNAsequencing analysis
7.7 years ago Ryan C. Thompson ★ 7.9k
4
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0
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1.5k
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Answer: A: Question on performing/interpretation results ANOVA-like analysis using limma
7.8 years ago Ryan C. Thompson ★ 7.9k
0
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1
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7.8k
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Comment: C: Filtering for ATAC-seq
7.8 years ago Ryan C. Thompson ★ 7.9k
0
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1
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7.8k
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Comment: C: Filtering for ATAC-seq
7.8 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.5k
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Answer: A: Analyzing a subgroups of samples, which result should I trust
7.8 years ago Ryan C. Thompson ★ 7.9k
2
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3
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1.7k
views
Cannot install Rhtslib on Mac OS 10.13
rhstlib installation compilation error
7.8 years ago Ryan C. Thompson ★ 7.9k
1
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1
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1.7k
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Answer: A: Cannot install Rhtslib on Mac OS 10.13
7.8 years ago Ryan C. Thompson ★ 7.9k
1
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0
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1.8k
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Answer: A: Information regarding the (minimum) number of genes needed to analyse with DESeq
7.8 years ago Ryan C. Thompson ★ 7.9k
0
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0
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1.7k
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Comment: C: How to write a preprocess.reads function for summarizeOverlaps that requires dif
7.8 years ago Ryan C. Thompson ★ 7.9k
0
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0
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1.4k
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Comment: C: Limma model for paired and pool together
7.8 years ago Ryan C. Thompson ★ 7.9k
1
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1
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1.4k
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Answer: A: Limma model for paired and pool together
7.8 years ago Ryan C. Thompson ★ 7.9k
2
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1
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1.3k
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Answer: A: read counts for gene families
7.8 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: read counts for gene families
7.8 years ago Ryan C. Thompson ★ 7.9k
2
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2
replies
1.7k
views
How to write a preprocess.reads function for summarizeOverlaps that requires different logic for paired and single end reads?
summarizeoverlaps genomicalignments
updated 7.8 years ago by ★ 6.8k • written 7.8 years ago by ★ 7.9k
0
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1
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922
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Answer: A: normalisation of count data
7.8 years ago Ryan C. Thompson ★ 7.9k
1
vote
0
replies
2.3k
views
Answer: A: Separate listing of up-regulated and down-regulated genes in edgeR DGE results.
7.8 years ago Ryan C. Thompson ★ 7.9k
3
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1
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2.1k
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Answer: A: Repeated Measures, Within-Subject, Between-Groups RNAseq Analysis
7.8 years ago Ryan C. Thompson ★ 7.9k
1
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1
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1.9k
views
Answer: A: Trying to simplify Interaction analysis with edger, and propably failing to do s
7.8 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.9k
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Comment: C: Trying to simplify Interaction analysis with edger, and propably failing to do s
7.8 years ago Ryan C. Thompson ★ 7.9k
0
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2
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1.6k
views
Differential expression testing for groups with unequal variances/dispersions?
edgeR edgeR
updated 7.8 years ago by ▴ 10 • written 12.7 years ago by ★ 7.9k
0
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1
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5.2k
views
Comment: C: Invitation to submit articles to the Bioconductor gateway on F1000Research
7.8 years ago Ryan C. Thompson ★ 7.9k
0
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0
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2.7k
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Comment: C: limma - Multi-level Experiments - time course data
7.8 years ago Ryan C. Thompson ★ 7.9k
4
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1
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1.6k
views
Answer: A: How does the function model.matrix (to define experimental design) really works
7.9 years ago Ryan C. Thompson ★ 7.9k
1
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0
replies
1.6k
views
Answer: A: How is the best way to construct the model.matrix and the lmfit comparing longit
7.9 years ago Ryan C. Thompson ★ 7.9k
1
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1
reply
2.2k
views
Comment: C: Fitting Gamma GLMs for examining differential expression
7.9 years ago Ryan C. Thompson ★ 7.9k
0
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1
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2.0k
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Comment: C: Unmix() function in DeSeq capabilities
7.9 years ago Ryan C. Thompson ★ 7.9k
2
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1
reply
3.3k
views
Answer: A: [DESeq2] Odd patterns in MA plot
7.9 years ago Ryan C. Thompson ★ 7.9k
4
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1
reply
2.2k
views
Answer: A: Fitting Gamma GLMs for examining differential expression
7.9 years ago Ryan C. Thompson ★ 7.9k
0
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1
reply
2.9k
views
Comment: C: How to handle multi-TSS genes in Repitools?
7.9 years ago Ryan C. Thompson ★ 7.9k
0
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3
replies
2.9k
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How to handle multi-TSS genes in Repitools?
repitools promoter tss annotation
7.9 years ago Ryan C. Thompson ★ 7.9k
4
votes
1
reply
2.9k
views
Answer: A: edger glmQLFit mix glmLRT
7.9 years ago Ryan C. Thompson ★ 7.9k
1
vote
9
replies
2.5k
views
Help running the nondetects::qpcrImpute on my data?
nondetects software error
updated 7.9 years ago by • 0 • written 8.0 years ago by ★ 7.9k
0
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0
replies
1.0k
views
Comment: C: Normalize for changes in one direction
8.0 years ago Ryan C. Thompson ★ 7.9k
2
votes
0
replies
1.2k
views
Answer: A: Minimum in Voomplot
8.0 years ago Ryan C. Thompson ★ 7.9k
0
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1
reply
3.9k
views
Comment: C: Removing batch effects from microarray data based on only a subset of samples
8.0 years ago Ryan C. Thompson ★ 7.9k
819 results • Page 2 of 17
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