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Comment: Comment: log2FoldChange value is way too different when compared with counts(dds)
1 hour ago Michael Love 41k
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132
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Answer: Answer: log2FoldChange value is way too different when compared with counts(dds)
9 hours ago Michael Love 41k
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1
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2.4k
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Comment: Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
1 day ago Michael Love 41k
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0
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69
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Answer: Answer: Fold change calculation in Diffbind vs. DESEQ2?
1 day ago Michael Love 41k
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62
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Answer: Answer: Timecourse RNASeq analysis
1 day ago Michael Love 41k
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71
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Answer: Answer: Padj "NA" with thousands of low count although the raw read counts are quite lar
1 day ago Michael Love 41k
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173
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Answer: Answer: PCA plot suggestions
5 days ago Michael Love 41k
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0
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177
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Answer: Answer: Deseq2. decontXcounts not integers. Useful alternative?
5 days ago Michael Love 41k
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122
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Answer: Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
7 days ago Michael Love 41k
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0
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196
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Comment: Comment: Different Shrunk Log2FC according with reference
7 days ago Michael Love 41k
2
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0
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286
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Answer: Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
7 days ago Michael Love 41k
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1
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2.4k
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Comment: Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
8 days ago Michael Love 41k
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0
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207
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Comment: Comment: DESeq2 - dispersion estimation when there is none
8 days ago Michael Love 41k
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1
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207
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Answer: Answer: DESeq2 - dispersion estimation when there is none
9 days ago Michael Love 41k
0
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0
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398
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Comment: Comment: DESeq filtering specific to contrasts
12 days ago Michael Love 41k
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0
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730
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Comment: Comment: DESeq2 setting significant p-value
12 days ago Michael Love 41k
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1
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398
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Comment: Comment: DESeq filtering specific to contrasts
12 days ago Michael Love 41k
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1
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1.6k
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Comment: Comment: Which input file is used for DGEList in EgdeR?
12 days ago Michael Love 41k
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1
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2.4k
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Comment: Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
12 days ago Michael Love 41k
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0
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253
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Comment: Comment: DEG with low counts
12 days ago Michael Love 41k
0
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1
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398
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Comment: Comment: DESeq filtering specific to contrasts
12 days ago Michael Love 41k
0
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0
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118
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Answer: Answer: rlog transformation
13 days ago Michael Love 41k
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0
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99
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Answer: Answer: ONT long-read RNA sequencing - data analysis options
13 days ago Michael Love 41k
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1
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687
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Answer: Answer: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
13 days ago Michael Love 41k
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0
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121
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Answer: Answer: covariate with negative and positive values
13 days ago Michael Love 41k
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1
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730
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Comment: Comment: DESeq2 setting significant p-value
13 days ago Michael Love 41k
0
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0
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588
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Comment: Comment: How to correct for known and surrogate variables in DESeq2?
15 days ago Michael Love 41k
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0
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195
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Comment: Comment: Interaction Terms in DESeq2 - Shrinkage
15 days ago Michael Love 41k
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1
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235
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Answer: Answer: How to retrieve detailed regression results from deseq2
16 days ago Michael Love 41k
0
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1
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253
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Answer: Answer: DEG with low counts
16 days ago Michael Love 41k
1
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1
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1.6k
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Comment: Comment: Which input file is used for DGEList in EgdeR?
18 days ago Michael Love 41k
0
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0
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212
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Comment: Comment: Interaction term vs grouping variable design considerations
21 days ago Michael Love 41k
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0
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212
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Answer: Answer: Interaction term vs grouping variable design considerations
21 days ago Michael Love 41k
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0
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155
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Answer: Answer: IgG control in RIP-seq with Deseq2
21 days ago Michael Love 41k
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0
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229
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Answer: Answer: Regressing out batch effects
21 days ago Michael Love 41k
0
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0
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415
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Comment: Comment: DESeq2 step-by-step Normalization then DGE separately & Normalization methods an
27 days ago Michael Love 41k
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1
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2.4k
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Comment: Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
27 days ago Michael Love 41k
0
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2
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2.4k
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Comment: Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
27 days ago Michael Love 41k
0
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1
reply
2.4k
views
Comment: Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
28 days ago Michael Love 41k
1
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1
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415
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Comment: Comment: DESeq2 step-by-step Normalization then DGE separately & Normalization methods an
28 days ago Michael Love 41k
0
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0
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245
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Comment: Comment: Abnormal Low Dispersion Gene Population in DESeq2
29 days ago Michael Love 41k
1
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0
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146
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Answer: Answer: DESeq2 , filter and theta arguments in resutlts()
29 days ago Michael Love 41k
0
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1
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245
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Answer: Answer: Abnormal Low Dispersion Gene Population in DESeq2
4 weeks ago Michael Love 41k
0
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0
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165
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Answer: Answer: Convert transcriptomic bam to genomic bam?
4 weeks ago Michael Love 41k
0
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1
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342
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Comment: Comment: Doing comparison of RNA-seq data using EdgeR
4 weeks ago Michael Love 41k
0
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0
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153
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Answer: Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
4 weeks ago Michael Love 41k
0
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1
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342
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Answer: Answer: Doing comparison of RNA-seq data using Deseq2
4 weeks ago Michael Love 41k
1
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0
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343
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Answer: Answer: PCA of different bacterial species
5 weeks ago Michael Love 41k
0
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0
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204
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Comment: Comment: Clarification on Library Size Normalization After Using tximport with countsFrom
5 weeks ago Michael Love 41k
0
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1
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204
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Answer: Answer: Clarification on Library Size Normalization After Using tximport with countsFrom
5 weeks ago Michael Love 41k
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