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<prev • 443 results • page 1 of 15 • next >
2
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1
answer
40
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1
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Filtering low count when using Tximport from Salmon to DESeq2
deseq2 rna-seq written 14 hours ago by bharata1803 • 310 • updated 13 hours ago by h.mon ♦ 21k
0
votes
1
answer
189
views
1
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Issue with DESeq: when using DESeqDataSet object what to put under argument design when there are 3 variables
R deseq2 rna-seq written 8 weeks ago by catglen012 • 0
1
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1
answer
62
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1
answer
comparing two ratios in RNASeq data
rnaseq deseq2 written 1 day ago by mike • 60 • updated 1 day ago by Martombo • 2.3k
0
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0
answers
82
views
0
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salmon - tximport - deseq2 gene level workflow
tximport deseq2 salmon rna-seq written 2 days ago by jomo018 • 430
1
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2
answers
131
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2
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Histogram of p values for all tests
deseq2 rna-seq written 16 days ago by shivyasoni1994 • 0 • updated 3 days ago by tw617 • 20
2
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2
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81
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2
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rRNA removal needed for salmon / DESeq2 analysis
rrna deseq2 salmon contamination written 6 days ago by mark.dunning • 200
13
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2
answers
144
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10 follow
2
answers
smallRNA sequencing workflow and Database usage
annotation deseq2 pirna srna-seq normalization written 8 days ago by Konstantinos Yeles • 30 • updated 4 days ago by ti&te • 10
0
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1
answer
58
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1
answer
Pair-wise DESeq Analysis with 3 Factor Levels - RNA-Seq
differential gene expresssion deseq2 rna-seq written 5 days ago by tasnif.rahman • 0
3
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1
answer
88
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1
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Batch effect correction - miRNA sequencing - DESeq2
batch effects deseq2 mirna seq written 5 days ago by prekrish • 0 • updated 5 days ago by swbarnes2 ♦ 4.5k
10
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3
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3.4k
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6 follow
3
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Gene Set Enrichment Analysis after DESeq2
geneontology deseq2 rna-seq gsea written 12 months ago by Sreeraj Thamban • 100 • updated 6 days ago by enxxx23 • 190
3
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0
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100
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5 follow
0
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Atypical volcano plot RNA-seq
unequal sample size deseq2 rna seq volcano-plot written 8 days ago by Teresa • 20 • updated 8 days ago by WouterDeCoster ♦ 34k
0
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0
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109
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0
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non-integer numReads for differential expression analysis
non-integer numreads deseq2 written 12 days ago by Sam • 80
3
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1
answer
67
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1
answer
Deseq2 - Log2FoldChange is dependent on the number of genes in the analysis
deseq2 log2foldchange rna-seq written 12 days ago by gregoire.destreel • 10 • updated 12 days ago by russhh • 4.1k
3
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0
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767
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0
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DESeq2 multi-factor design
deseq2 rna-seq written 13 months ago by swbarnes2 ♦ 4.5k • updated 12 days ago by Biostar ♦♦ 20
0
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0
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66
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0
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Ribo-Seq multi time course analysis with DESeq2
ribo-seq deseq2 design sequencing written 14 days ago by hibernicah • 0
4
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2
answers
197
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5 follow
2
answers
Handling biological replicates across batches in DESeq2
R deseq2 deseq rna-seq written 19 days ago by Kristin Muench • 330
2
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1
answer
101
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1
answer
How to identify differential expressed genes if the normalization assumptions are violated
deseq2 edger written 16 days ago by afli • 140 • updated 16 days ago by Devon Ryan ♦ 86k
1
vote
1
answer
131
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1
answer
How to perform GO analysis for control vs treatment?
R deseq2 gene ontology rna-seq written 20 days ago by h-patrick • 20
3
votes
1
answer
86
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1
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Specific DE comparisons with complex design matrix
deseq2 written 21 days ago by grant.hovhannisyan • 1.2k • updated 21 days ago by swbarnes2 ♦ 4.5k
3
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1
answer
121
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1
answer
Differential expression analysis using GFOLD and DESeq2
deseq2 rna-seq gfold written 22 days ago by newbio17 • 0 • updated 22 days ago by Kevin Blighe ♦ 32k
7
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1
answer
436
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1
answer
Ballgown finds few DE genes compared to DESeq
ballgown deseq2 rna-seq written 4 months ago by corend • 70 • updated 22 days ago by shenwei1376 • 0
2
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2
answers
89
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2
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No replicates in 1 group, which idea is the best to apply?
no replicates deseq2 rna-seq edger written 23 days ago by Batu • 110 • updated 23 days ago by EagleEye ♦ 5.9k
1
vote
1
answer
196
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1
answer
Compare expression of one group to the mean of others using DESeq2
deseq2 written 24 days ago by afli • 140
0
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0
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74
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0
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Normalization of read counts from HTSeq by library size
R htseq-count deseq2 ngs rna-seq written 23 days ago by Susmita Mandal • 0
7
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2
answers
145
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2
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DEseq2 logfold interpretation
deseq2 rna-seq written 23 days ago by MAPK • 1.3k
4
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1
answer
151
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1
answer
How do I modify default ggplot2 axis?
rscript ggplot2 deseq2 rna-seq written 25 days ago by jaqx008 • 40 • updated 25 days ago by rjactonspsfcf • 80
15
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3
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311
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7 follow
3
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Is it possible to analyze differentially expressed genes without sample replicates using DESeq2?
deseq2 rna-seq written 8 weeks ago by Sarath Kumar • 0 • updated 26 days ago by bloggerklik • 10
2
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0
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137
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0
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What is the ideal FDR and fold change cutoff to consider in a RNA-seq experiment and which one should be the priority for selecting the DEGs?
fdr deseq2 rna-seq deg fold change written 28 days ago by aishu.jp • 10
1
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0
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88
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0
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Strange results, in term of DEGs, when including an outlier sample (DEA with DESeq2); someone knows why?
dea deseq2 outlier rna-seq written 29 days ago by fab.sands • 0
2
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1
answer
238
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1
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DESeq2 DEG analysis using different sequencing depth data
sequencing deseq2 rna-seq deg depth written 4 weeks ago by woongjaej • 10 • updated 29 days ago by h.mon ♦ 21k
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