Bioconductor Macs2

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atac-seq diffbind macs2 macs peak finding

updated 7.1 years ago by BioinfGuru ▴ 30 • written 7.7 years ago by igor ▴ 40

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diffbind macs2 chip-seq

6.4 years ago chunhong.liu07 ▴ 10

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945

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diffbind macs2

updated 6.1 years ago by Rory Stark ★ 5.2k • written 6.1 years ago by Lauma R ▴ 10

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1.6k

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DiffBind macs2

updated 5.1 years ago by Rory Stark ★ 5.2k • written 5.3 years ago by Anna • 0

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DiffBind MACS2

updated 3.7 years ago by Rory Stark ★ 5.2k • written 3.7 years ago by ep15587 • 0

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857

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DESeq2 MACS2

17 months ago vanbelj ▴ 30

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diffbind macs2

updated 8.4 years ago by Gord Brown ▴ 650 • written 8.4 years ago by tony ▴ 10

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1.8k

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ChIPSeq SICER2 DiffBind MACS2 offtopic

updated 2.9 years ago by James W. MacDonald 65k • written 2.9 years ago by Yuan Tian ▴ 280

8 results • Page 1 of 1

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Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position) by Yveto • 0

Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…

Answer: More regions in union when increasing DBA$config$mergeOverlap by Rory Stark ★ 5.2k

I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …

Comment: log2FoldChange value is way too different when compared with counts(dds) by Michael Love 41k

But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…

Comment: log2FoldChange value is way too different when compared with counts(dds) by HAK • 0

Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…

Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by ATpoint ★ 4.1k

Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…

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A: Error in DESeqDataSet : some values in assay are not integers

Bioconductor 3.19 is Released!

Answer: DEseq2 coefficient

SPIA plotP giving error

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