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DMRcate results: How to find out which CpG sites constitute each DMR

R bioconductor methylation dmrcate written 11 months ago by c.ryder3 • 20 • updated 15 days ago by ATpoint • 5.7k

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222

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DMR.plot Erreur : Bad Request

R dmrcate dna methylation written 6 months ago by daron.6 • 0

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467

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How to create a design matrix for Cpg.annotate?

R bioconductor dmrcate cpg.annotate written 11 months ago by c.ryder3 • 20 • updated 11 months ago by e.rempel • 660

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539

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A workflow for identification of differentially methylated regions, starting with a data frame of beta values?

450k R bioconductor methylation dmrcate written 11 months ago by c.ryder3 • 20 • updated 11 months ago by halo22 • 100

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580

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categorize DMRs by type (hyper - hypo methilated) in DMRcate or minfi

450k dmrcate hypo mehylated minfi hyper methylated written 14 months ago by rahel14350 • 20

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639

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visualization of DMRcate or minfi output on UCSC

450k dmrcate track hub minfi ucsc written 14 months ago by rahel14350 • 20 • updated 14 months ago by asyavuz • 130

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Recent Replies

C: Downloading Genome Assembly and Annotation report from NCBI by saadleeshehreen • 40
Thanks a lot...:) I am looking for this one
A: Downloading Genome Assembly and Annotation report from NCBI by genomax ♦ 52k
[This file][1] should have the reports for prokaryotic genomes. `README` file says it contains t...
C: Small RNAseq data with untrimmed reads left after trimming process by genomax ♦ 52k
If those reads did not follow the expected output structure based on the kit it is possible that ...
C: Small RNAseq data with untrimmed reads left after trimming process by Shyam • 110
Where do these reads hit the genome? rRNA/tRNA? If the library prep is not good at the size fract...
C: solution for SPades to assemble genome with low quality data by StudentBio • 0
my file is 14 GB single-cell want mean it seems that i don t understand it
C: solution for SPades to assemble genome with low quality data by StudentBio • 0
50 and quality score for position in reads are betweeen 28 and 20 after trimming
C: solution for SPades to assemble genome with low quality data by StudentBio • 0
50 and quality score for position in reads are betweeen 28 and 20 after trimming
C: CWL: Getting output file of a CommandLineTool using glob by skanwal • 20
Thanks @inutano. It did the trick :)
C: How to perform differential gene expression analysis between two closely related by Vincent Laufer • 930
Although this does not address your initial question, I wanted to propose a downstream QC step th...
C: Convert (Copy Number Variation) CNV to gene by Vincent Laufer • 930
I agree with the comment above; i.e. we need to know what exactly you mean. Is what you want to s...
A: SOAP DENOVO outfile (.scafSeq) by h.mon ♦ 16k
`C some number` (e.g. C2943672) are singleton contigs, which could not be scaffolded. `scaffold s...
A: collapsing GFF coordinates with common start OR stop by h.mon ♦ 16k
First ensure your GFF is compliant with the specifications (see my comment above), then you can u...

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