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3
votes
2
replies
615
views
Input source for the IPA tool
IPA RNA-seq
2.6 years ago by Mozart ▴ 330
2
votes
2
replies
1.0k
views
EM algorithm in Kallisto
RNA-seq Kallisto
2.6 years ago by Mozart ▴ 330
5
votes
2
replies
1.1k
views
Kallisto Bootstrapping and deseq2
Deseq2
2.6 years ago by Mozart ▴ 330
0
votes
3
replies
1.1k
views
Adapter trimming with trimmomatic
trimmomatic RNAseq
updated 2.7 years ago by 141k • written 2.7 years ago by ▴ 330
2
votes
8
replies
773
views
Annotating two columns at the same time
RNA-Seq r
3.2 years ago by Mozart ▴ 330
15
votes
14
replies
1.9k
views
how can interpret these biologically weird results?
RNA-Seq
updated 3.2 years ago by 20 • written 6.4 years ago by ▴ 330
3
votes
5
replies
909
views
Network analysis: where to start?
RNA-Seq network analysis
updated 3.5 years ago by ★ 1.4k • written 3.5 years ago by ▴ 330
0
votes
1
reply
717
views
Convergence of betas, iterations arguments with nbinomialWaldTest
RNA-Seq
3.5 years ago by Mozart ▴ 330
1
vote
1
reply
1.1k
views
Meta Analysis on RNA-seq data
RNA-Seq meta analysis
updated 3.6 years ago by 20 • written 3.7 years ago by ▴ 330
0
votes
6
replies
1.1k
views
List of uniquely expressed genes
rna-seq RNA-Seq counts
3.7 years ago by Mozart ▴ 330
1
vote
1
reply
837
views
Gene annotation outputs NA values for real genes
RNA-Seq annotation
3.8 years ago by Mozart ▴ 330
5
votes
3
replies
4.8k
views
Classic threshold for log2 fold change in RNA-seq experiment
RNA-Seq
updated 3.8 years ago by 3.2k • written 3.8 years ago by ▴ 330
1
vote
2
replies
824
views
Differential expression analysis in DESeq2 for an experiment with multiple variable
deseq2 RNA-Seq
updated 3.8 years ago by 81k • written 3.8 years ago by ▴ 330
2
votes
1
reply
555
views
Different trimming for different batches within the same experiment
trimming RNA-Seq
3.8 years ago by Mozart ▴ 330
20
votes
15
replies
7.4k
views
Kallisto-Sleuth or Kallisto-Deseq2?
RNA-Seq
updated 3.8 years ago by ▴ 20 • written 6.5 years ago by ▴ 330
2
votes
1
reply
692
views
Differences when genome assembly changes in Kallisto
RNA-Seq genome
3.8 years ago by Mozart ▴ 330
3
votes
1
reply
1.3k
views
Duplication level (RNA)
RNA-Seq
3.8 years ago by Mozart ▴ 330
3
votes
2
replies
1.9k
views
biomaRt correct annotation but...
RNA-Seq
3.8 years ago by Mozart ▴ 330
0
votes
2
replies
1.2k
views
Highly biased experiment showing funny histogram of p values for all tests. Suggestions?
deseq2 RNA-Seq filtering
3.8 years ago by Mozart ▴ 330
3
votes
3
replies
8.1k
views
Kallisto and downstream analysis with tximport and DESeq2
RNA-Seq kallisto tximport deseq2
3.8 years ago by Mozart ▴ 330
5
votes
4
replies
1.2k
views
same experiment, different values with my heat map. Any help?
RNA-Seq heatmap
3.8 years ago by Mozart ▴ 330
2
votes
5
replies
1.5k
views
Plotting PCA plot in DESeq2 on SVA corrected counts
sva deseq2 pca
3.8 years ago by Mozart ▴ 330
1
vote
6
replies
1.1k
views
Comparison between heat maps corrected with different algorithms
sva
updated 3.8 years ago by 87k • written 3.8 years ago by ▴ 330
1
vote
3
replies
1.3k
views
Clarification about MA plot
RNA-Seq maplot
3.9 years ago by Mozart ▴ 330
0
votes
0
replies
827
views
Conservative (unadjusted) p value histograms
RNA-Seq
3.9 years ago by Mozart ▴ 330
2
votes
4
replies
2.4k
views
Heatmap with just two columns
RNA-Seq heatmap
3.9 years ago by Mozart ▴ 330
3
votes
3
replies
2.6k
views
GSEA and IPA: alternative or complementary?
RNA-Seq pathway analysis
updated 3.9 years ago by 13k • written 3.9 years ago by ▴ 330
9
votes
7
replies
1.2k
views
PCA plots and biological information taken from other principal components
pca plot RNA-Seq
3.9 years ago by Mozart ▴ 330
30
votes
12
replies
3.8k
views
Trying to understand the maths behind one Limma function
limma RNA-Seq batch-effect
updated 3 days ago by 43k • written 4.0 years ago by ▴ 330
2
votes
4
replies
648
views
Question about model design in for RNA-seq experiment
deseq2 model design
4.0 years ago by Mozart ▴ 330
0
votes
0
replies
881
views
Advice on group specific condition effect and model matrix in deseq2
deseq2 batch-effect
updated 3 days ago by 43k • written 4.1 years ago by ▴ 330
8
votes
10
replies
1.1k
views
Best statistical test when plotting normalised counts
RNA-Seq deseq2
4.1 years ago by Mozart ▴ 330
2
votes
7
replies
4.7k
views
adding batch variable in colData(dds)
deseq2
updated 4.9 years ago by ▴ 260 • written 4.9 years ago by ▴ 330
9
votes
12
replies
4.1k
views
Batch effect, how to create a model matrix
RNA-Seq deseq2 batch-effect
updated 1 day ago by 43k • written 4.9 years ago by ▴ 330
7
votes
14
replies
2.1k
views
6 follow
General question about batch effect, read trimming and what to do when the adapter trimming step is not working appropriately.
RNA-Seq trimmomatic trimming adapters
updated 5.0 years ago by 14k • written 5.0 years ago by ▴ 330
3
votes
2
replies
1.4k
views
how to appropriately export datasets from R studio in an appropriate style?
R excel
updated 5.1 years ago by ▴ 120 • written 5.1 years ago by ▴ 330
1
vote
1
reply
1.1k
views
how to get rid of redundancies in an RNA-seq experiment but preserving genes changing in opposite directions?
RNA-Seq data mining
updated 5.2 years ago by 13k • written 5.2 years ago by ▴ 330
121
votes
29
replies
35k
views
11 follow
PCA in a RNA seq analysis
RNA-Seq pca
updated 5.4 years ago by 28k • written 6.5 years ago by ▴ 330
13
votes
12
replies
2.9k
views
Network/Pathway Analysis from Mass Spec data
proteomics
5.5 years ago by Mozart ▴ 330
6
votes
7
replies
3.1k
views
Surrogate variable analysis: ask for a practical example
RNA-Seq sva
updated 6.0 years ago by 43k • written 6.0 years ago by ▴ 330
0
votes
0
replies
1.1k
views
Pathway Analysis and hypergeometric distribution
gene RNA-Seq
6.0 years ago by Mozart ▴ 330
5
votes
9
replies
1.6k
views
Merging values in a single data frame
R
6.1 years ago by Mozart ▴ 330
6
votes
3
replies
1.2k
views
theory behind the differential expression
RNA-Seq
6.1 years ago by Mozart ▴ 330
3
votes
9
replies
1.8k
views
Advice for the following PCA analysis
RNA-Seq
6.1 years ago by Mozart ▴ 330
2
votes
5
replies
1.1k
views
Pathway Analysis with an "ideal environment"
RNA-Seq pathway
6.2 years ago by Mozart ▴ 330
5
votes
2
replies
4.5k
views
sleuth vs deseq2
RNA-Seq deseq2 deseq
updated 6.4 years ago by 87k • written 6.4 years ago by ▴ 330
3
votes
3
replies
1.1k
views
Best way to compare two different pipelines
RNA-Seq
updated 6.4 years ago by ★ 1.7k • written 6.4 years ago by ▴ 330
3
votes
2
replies
3.0k
views
Discrepancy between abundance.tsv and tx2gene.csv
RNA-Seq
updated 6.4 years ago by ▴ 930 • written 6.4 years ago by ▴ 330
6
votes
4
replies
1.1k
views
distribution of abundances
RNA-Seq
updated 6.5 years ago by 87k • written 6.5 years ago by ▴ 330
49 results • Page 1 of 1
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