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2
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2
replies
2.0k
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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 6.5 years ago by 41k • written 6.5 years ago by ▴ 50
0
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0
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4.8k
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Comment: C: Using of limma moderated t-test with "corrected" expression matrix resulting fr
6.5 years ago Ahdee ▴ 50
0
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0
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4.0k
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Comment: C: Method for batch correction
6.5 years ago Ahdee ▴ 50
0
votes
1
reply
995
views
Running model separately for each cell line or as the same model?
limma deseq2 edger rnaseq
updated 6.5 years ago by ▴ 120 • written 6.5 years ago by ▴ 50
2
votes
2
replies
1.1k
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Why does total unique map not equal to library size?
htseqcounts star rnaseq
6.7 years ago Ahdee ▴ 50
0
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0
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18k
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Comment: C: difference among tximport scaledTPM, lengthScaledTPM and the original TPM output
6.7 years ago Ahdee ▴ 50
0
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0
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904
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Comment: C: LIMMA 2x2 with time
6.9 years ago Ahdee ▴ 50
0
votes
2
replies
904
views
LIMMA 2x2 with time
limma limma design matrix
updated 6.9 years ago by 65k • written 6.9 years ago by ▴ 50
1
vote
0
replies
9.2k
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Comment: C: Minfi error in reading Basename column
7.1 years ago Ahdee ▴ 50
0
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0
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1.2k
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RPKM counts with SVA package & Combat with SVA?
batch effect combat sva sva
7.2 years ago Ahdee ▴ 50
0
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0
replies
992
views
Comment: C: Treating 2 coefficients as the same group in Limma
7.6 years ago Ahdee ▴ 50
1
vote
2
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992
views
Treating 2 coefficients as the same group in Limma
limma glm
updated 7.6 years ago by 65k • written 7.6 years ago by ▴ 50
0
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4
replies
4.4k
views
Comment: C: Illumina MethylationEPIC vs. 450K
8.2 years ago Ahdee ▴ 50
0
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0
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4.4k
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Comment: C: Illumina MethylationEPIC vs. 450K
8.2 years ago Ahdee ▴ 50
4
votes
10
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4.4k
views
Illumina MethylationEPIC vs. 450K
methylumi minfi illuminahumanmethylation450k.db 450k methyanalysis
updated 8.2 years ago by ▴ 740 • written 8.2 years ago by ▴ 50
1
vote
1
reply
4.9k
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Combat generating negative values, should I log2 transform first?
combat batch effect
updated 8.6 years ago by ▴ 850 • written 8.6 years ago by ▴ 50
0
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0
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2.3k
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Comment: C: How to use TopGO with gene symbols extracted from Illumina probes
8.6 years ago Ahdee ▴ 50
3
votes
2
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2.3k
views
How to use TopGO with gene symbols extracted from Illumina probes
topgo
updated 8.6 years ago by 65k • written 8.6 years ago by ▴ 50
0
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0
replies
1.5k
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Comment: C: Help with 2x2 factorial for using LIMMA
8.6 years ago Ahdee ▴ 50
0
votes
1
reply
1.5k
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Comment: C: Help with 2x2 factorial for using LIMMA
8.6 years ago Ahdee ▴ 50
0
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1
reply
1.5k
views
Comment: C: Help with 2x2 factorial for using LIMMA
8.6 years ago Ahdee ▴ 50
6
votes
9
replies
1.5k
views
Help with 2x2 factorial for using LIMMA
limma design matrix limma
updated 8.6 years ago by 65k • written 8.6 years ago by ▴ 50
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