Bioconductor Ramwas

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ramwas bams

updated 14 months ago by James W. MacDonald 65k • written 14 months ago by Anushka • 0

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ramwas ram

updated 14 months ago by ATpoint ★ 4.0k • written 14 months ago by Anushka • 0

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MethylSeq ramwas MEDIPS qsea

updated 20 months ago by Simon Pearce • 0 • written 21 months ago by Marianna ▴ 20

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Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10

Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…

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'…

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biomaRt error: database disk image is malformed

Comment: biomaRt : No lock file for BiocFileCache

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