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• information about MACS analysis in Galaxy
  I have used MACS v1 in Galaxy to call peaks. I know that MACS automatically removes duplicate rea...
• Duplicate Reads
  Dear all, When is it necessary to remove duplicate reads from your RNA Seq analysis? Is it requi...
• How to remove duplicate sequence
  Our Ribo-seq libraries involved a PCR step (9 cycles of amplification) in order to get enough mat...
• Problems with MACS peak calling--FDRs of 100%
  Hello, I am having some issues with MACS peak calling. I have 5 files in my ChIP-Seq dataset (in...
• rmdup - remove PCR duplicates from ChIP-seq data
  I have aligned my chip-seq data with bow tie and wanted to remove PCR duplicates. I ran rmdup in ...
• Removing Duplicate Lines From A Table
  Hi, I have a table and would like to remove duplicate lines based on values in the first column....
• removing of duplication in RNA seq
  Hi I am new in bioinformatics and in Galaxy too so please bear with me Soon I will have RNA seq...
• Removing sequence duplicates
  I have used top hat in galaxy to map my files. After mapping i am interested in removing sequence...
• Remove PCR duplicates through Unique Molecular Identifiers (UMIs)
  Dear all is there a specific tool in Galaxy to correctly remove PCR duplicates from alignment fil...
• Remove duplicate rows from table
  I have a table in Galaxy with 19,132 rows.  I can remove duplicates using group from join, subtra...
• MACS fails, finds peaks but can't build model
  Hi,  I'm using the Galaxy GVL-QLD instance.    I have single reads chip-seq files from E. coli...
• Problem with Percent duplication on MARK DUPLICATES
  Hello. I have a Fastq file with 30,000 reads. When I analyze them with Fastqc the level of duplic...
• Reads on Y chromosome while doing sequecing with a female donor
  Hello, When looking closely to my alignments data I found something interesting. Some of my read...
• Duplicate Row Removal in Merged FeatureCounts
  Hello,   I am trying to transfer merged featurecount data into an R-studio package called RNASe...
• Error message: This job was terminated because it used more memory than it was allocated
  Hi,  I'm processing exome data (enriched with Nextera kit) in Galaxy. After mapping the reads us...
• Mark Duplicates - MAPQ = 0 and Value was put into PairInfoMap more than once
  Dear Biostars Galaxy team, I'm relatively new to using the Galaxy online platform and have been ...
• About Primer/Adaptor Removal?
  Hi, Does galaxy provide primer/adaptor removal for NGS (illumina) reads? Thanks. Arthur
• Removal Of Duplicates And Cufflinks Usage
  Hi All I've started analyzing my RNA-Seq data for two time points: Day0 and Day4 for control an...
• Remove sequences with duplicate chromosome start position
  I used GALAXY to extract the 1000 bp upstream of all UCSC genes (i.e. promoters). I sorted the da...