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• conversion to Bedgraph files
  Hi, I have BAM files from Bowtie2. I want to use MACS2 bdgdiff in galaxy to identify differntial...
• An odd number of differential peaks in MACS2
  hi, I'm working with ChIP-seq data and using MACS2 version- macs2 2.1.0.20140616. I run MACS2 c...
• Running MACS2 without a control sample
  While going through the [Analysis of Chip-Seq][1] data tutorial, I realized that one of my input ...
• MACS2 bdgdiff output empty
  hello, I'd like to report an issue I've been having with the MACS2 bdgdiff function in the Galax...
• How to do the peak calling with "MACS2 bdgbroadcall" for H3K9me3 ChIP-seq
  Hi, I try to use the MACS2 bdgbroadcall to analyze my H3K9me3 ChIP-seq data, but there is no opti...
• MACS2 not working on bam files - possible error with alignment?
  Hi all, I have successfully called peaks on my bam files using earlier versions of MACS, however...
• Macs2 Bdgdiff help
  Hello, I am new to processing ChIP seq data I want to do a differential peaks comparison between...
• MACS2 bdgdiff and Diffbind problem - job was terminated because it used more memory than it was allocated
  Hi all. I'm having som trouble running both MACS2 bgddiff and Diffbind. It keeps returning the er...
• MACS2 bdgdiff output is empty
  Hello, I'd like to report an issue I've been having with the MACS2 bdgdiff function in the Galax...
• MNase ChIP-seq paired-end data analysis ?
  Hello everyone! Sorry for long explanation! I did paired-end ChIP-seq for my input and IP sample...
• Incorporating biological replicates to identify statistically significant changes between two different "treatment" samples and one "control" in ChIP-Seq
  I performed a ChIP-seq experiment in which I'm looking at H3K4me3 levels under three conditions. ...
• peak calling in MACS2
  I am trying to do peak calling of paired-end sequences using MACS2 in Galaxy. The Filter SAM file...
• Help with Chip-Seq data analysis without input!
  Hi! I am new in galaxy and I am trying to analyse the sequences of a ChIP-Seq.I have been reading...
• DiffBind ln failed to create symbolic link file-bamreads.bam File exists
  Hi there, I am trying to use DiffBind (Galaxy Version 2.6.6.4) to combine ChIP-seq replicates an...