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861
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Comment: C: Run edgeR or Voom+LIMMA where groups are dynamically reassigned for each gene.
6.6 years ago Ahdee ▴ 50
2
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3
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861
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Run edgeR or Voom+LIMMA where groups are dynamically reassigned for each gene.
rnaseq limma edger
updated 6.6 years ago by 52k • written 6.6 years ago by ▴ 50
2
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2
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2.2k
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Using tximport to convert a dataframe consisting of tpm to counts for use with limma-voom or edgeR?
tximport limma rna-seq
updated 7.2 years ago by 43k • written 7.2 years ago by ▴ 50
0
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0
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5.4k
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Comment: C: Using of limma moderated t-test with "corrected" expression matrix resulting fr
7.3 years ago Ahdee ▴ 50
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0
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4.6k
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Comment: C: Method for batch correction
7.3 years ago Ahdee ▴ 50
0
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1
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1.2k
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Running model separately for each cell line or as the same model?
limma deseq2 edger rnaseq
updated 7.3 years ago by ▴ 120 • written 7.3 years ago by ▴ 50
2
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2
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1.3k
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Why does total unique map not equal to library size?
htseqcounts star rnaseq
7.4 years ago Ahdee ▴ 50
0
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0
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19k
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Comment: C: difference among tximport scaledTPM, lengthScaledTPM and the original TPM output
7.5 years ago Ahdee ▴ 50
0
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0
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1.1k
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Comment: C: LIMMA 2x2 with time
7.7 years ago Ahdee ▴ 50
0
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2
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1.1k
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LIMMA 2x2 with time
limma limma design matrix
updated 7.7 years ago by 67k • written 7.7 years ago by ▴ 50
1
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0
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10k
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Comment: C: Minfi error in reading Basename column
7.9 years ago Ahdee ▴ 50
0
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0
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1.4k
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RPKM counts with SVA package & Combat with SVA?
batch effect combat sva sva
7.9 years ago Ahdee ▴ 50
0
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0
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1.2k
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Comment: C: Treating 2 coefficients as the same group in Limma
8.3 years ago Ahdee ▴ 50
1
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2
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1.2k
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Treating 2 coefficients as the same group in Limma
limma glm
updated 8.3 years ago by 67k • written 8.3 years ago by ▴ 50
0
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4
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5.0k
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Comment: C: Illumina MethylationEPIC vs. 450K
8.9 years ago Ahdee ▴ 50
0
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0
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5.0k
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Comment: C: Illumina MethylationEPIC vs. 450K
8.9 years ago Ahdee ▴ 50
4
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10
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5.0k
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Illumina MethylationEPIC vs. 450K
methylumi minfi illuminahumanmethylation450k.db 450k methyanalysis
updated 8.9 years ago by ▴ 750 • written 8.9 years ago by ▴ 50
1
vote
1
reply
5.6k
views
Combat generating negative values, should I log2 transform first?
combat batch effect
updated 9.3 years ago by ▴ 870 • written 9.3 years ago by ▴ 50
0
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0
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2.5k
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Comment: C: How to use TopGO with gene symbols extracted from Illumina probes
9.3 years ago Ahdee ▴ 50
3
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2
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2.5k
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How to use TopGO with gene symbols extracted from Illumina probes
topgo
updated 9.3 years ago by 67k • written 9.3 years ago by ▴ 50
0
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0
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1.9k
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Comment: C: Help with 2x2 factorial for using LIMMA
9.3 years ago Ahdee ▴ 50
0
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1
reply
1.9k
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Comment: C: Help with 2x2 factorial for using LIMMA
9.3 years ago Ahdee ▴ 50
0
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1
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1.9k
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Comment: C: Help with 2x2 factorial for using LIMMA
9.3 years ago Ahdee ▴ 50
6
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9
replies
1.9k
views
Help with 2x2 factorial for using LIMMA
limma design matrix limma
updated 9.3 years ago by 67k • written 9.3 years ago by ▴ 50
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