NGS Epigenomics Data Analysis Workshop
Exploring DNA Methylation and Chromatin Landscapes with Next-Generation Sequencing Data
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ecSeq Bioinformatics started a topic In-Person Workshop - NGS Epigenomics Data Analysis (November 3-5 in Munich) - BS-Seq, ChIP-Seq, ATAC-Seq, ...in EpigeneticsIn-Person Workshop - NGS Epigenomics Data Analysis (November 3-5 in Munich) - BS-Seq, ChIP-Seq, ATAC-Seq, ...
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In-Person Workshop - NGS Epigenomics Data Analysis (November 3-5 in Munich) - BS-Seq, ChIP-Seq, ATAC-Seq, ...
NGS Epigenomics Data Analysis Workshop
Exploring DNA Methylation and Chromatin Landscapes with Next-Generation Sequencing Data
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Unknown sequences in R2 that couldn't be mapped
I've run Bismark to align a set of BS-Seq data. Some (not all) of the samples had low mapping efficiency (~20%). I then tried mapping R1 and R2 separately... -
how to visualize methylation level in different gene structure
Dear All,
I would like to know how to make the figures like below to show the methylation level at genes or TEs, and their 1-kb upstream... -
Visualization of whole genome DNA methylation in IGB (March 25, 11:30am-12pm EST)
“Focus on a Feature: Visualization of whole genome DNA methylation data in IGB.”
This tutorial has ended. You can find the recording her...Last edited by Nowlan Freese; 03-25-2015, 02:32 PM. -
Non-C methylation in Bismark .cov files
Hi
I am analyzing RRBS using TrimGalore/Bismark and the methylation extractor, and am noticing quite a few non-C (T, A, and G) methylation signals... -
Bismark for Ion Torrent
I am trying to use Bismark on targeted bisulphite sequencing done on PGM. Average read length is about ~102 maximum being ~190.
Bismark uses bowtie2... -
bwa-meth and bs-seq comparison
Hi All, I have written a simple BS-Seq aligner that wraps bwa mem. It is available from here: https://github.com/brentp/bwa-meth
There... -
I am a new member!
Hi,i am handling some BS-seq data ,i hope that someone could communicate with me, and it's my pleasure! -
How to define a region while conducting BS-seq DMR analysis
hi,
those days i attempt to perform a BS-seq data analysis with my rice data. after alignment and methylation calling,there will be a DMR identification... -
BS-Seq from a single cell?
Hello there,
is anybody attempting BS-Seq from a single cell or, anyway, from very limited amount of material?
Given that... -
bisulfite sequencing and cluster detection
Hi all, we are trying to perform BS-seq with the protocol described by Smith ZD et al - Methods 2009, which relies on preliminary digestion with MspI.... -
Understanding the qmap bis-seq format
Hello,
I hoping somebody can help me to understand the qmap format, used to describe the bis-seq methylome data from recent papers. I downloaded... -
bs-seq in colorspace
there is some discussion of this in another thread.
i'm considering doing the following for bs-treated reads in colorspace:
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Which BS-seq analysis tool to choose?
I will do some analyses on BS-seq data(paired-end reads from Illumina).Is there anyone who have do the similar job like mine and could you give me some...Last edited by zeam; 11-19-2010, 03:45 AM.
