26 results in 0.0022 seconds.
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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... -
directional vs nondirectional methylation libraries
Dear all,
I am currently working with QiaSeq Methyl data. I was very surprised that my bismark/bowtie pipeline, which worked fine so far... -
Paired-end RRBS with weird M-bias on read-2
Dear all,
I have a paired-end RRBS dataset from mouse and I am a bit puzzled since the M-bias plots show weird peaks especially on read-2.... -
Help understanding directional libraries in bisulfite sequencing
Hi all, I know there are some other threads about this and I have read them, but for some reason I'm still struggling to understand the molecular biology... -
RRBS mapping efficiency in CLC vs Bismark
Hi
we are working with RRBS data from bull sperm samples. previously we used Bismark mapper for pig data and the results were very good... -
Runing MOABS on Bismark BAM files
Hello,
I have BAM files generated with Bismark 0.19.0. I wish to detect differentially methylated Cytosines (CpG or non-CpG context).... -
Bismark - extract genomic sequence from SAM / BAM format?
Hello all,
I am working with a bisulfite-converted library and I would like to extract the original genomic sequences for my reads (in... -
BiSeq - How to handle covariates?
Hi,
I am attempting to use BiSeq (Hebestreit et al. 2013) to delineate DMRs among treatment groups in Bismark aligned RRBS data
... -
Bisulfite sequencing question
Hi all,
A (may be) stupid question about bisulfite sequencing: Do we in general expect CpGs to be equally methylated on both strands? For... -
Bismark Methyl-seq Analysis
We have sequenced a genome using Illumina's True-seq bisulfite sequencing kit. After getting back the seq, we are analyzing methylation rate using Bismark.... -
Variable Bismark mapping efficiency of targetted BS data for DNA methylation
I have sequenced numerous multiplexed pools of BS amplicon-seq libraries derived from human samples on a MiSeq over the past few weeks. I have been utilising... -
MultiQC - a new tool to create summary reports from any analysis output
Hi everyone,
I've recently released a new tool called MultiQC - it's a simple and quick command line tool that you point at a directory... -
bismark - fasta alignment result?
Hi.
I used 'bismark' to align bisulfite treated DNA sequences in the fasta format.
Bismark produced a .sam and a report file along with... -
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...
