Showing : ChAMPdata • reset
1
vote
4
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158
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Error EPICv2 ChAMP
ChAMPdata IlluminaHumanMethylationEPICv2anno.20a1.hg38 ChAMP
updated 3 days ago by 65k • written 7 days ago by • 0
2
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5
replies
1.9k
views
Problem at champ.load
ChAMPdata ChAMP
updated 6 weeks ago by 65k • written 12 months ago by • 0
0
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0
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196
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how to solve this error?
ChAMPdata ChAMP
9 weeks ago Meghana • 0
0
votes
2
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1.2k
views
Trouble Loading Data into Champ
loaddata ChAMPdata champload R ChAMP
updated 11 months ago by • 0 • written 3.2 years ago by • 0
0
votes
1
reply
785
views
Error in ChAMP GUI
ChAMP shiny ChAMPdata
updated 2.1 years ago by • 0 • written 2.1 years ago by • 0
0
votes
3
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1.1k
views
Wrong terminology used on champ.load() output of ChAMP package?
ChAMPdata ChAMP
updated 2.3 years ago by ▴ 780 • written 2.3 years ago by • 0
0
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2
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1.2k
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Why the order of sample names in the beta matrix affect the analysis results of Champ.DMP? What should I do?
ChAMP limma Bioconductor ChAMPdata
2.7 years ago • updated 2.6 years ago Jinyue • 0
2
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1
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1.2k
views
How to download the ChAMP dependency ChAMPdata
ChAMP ChAMPdata
updated 3.0 years ago by 3.8k • written 3.0 years ago by ▴ 10
0
votes
2
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870
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Error myDMP not found
Illumina methylationArrayAnalysis ChAMPdata ChAMP
3.2 years ago sissialva21 • 0
9 results • Page 1 of 1
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Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Answer: Improving the design matrices vignette in RNAseq123 by Gordon Smyth 50k
Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…
Votes
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
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