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• PEAR alternative for merging overlapping paired-end reads using Galaxy tools
  Hello! I typically use PEAR to merge my two overlapping paired-end reads for one high quality re...
• Pre-Processing Of Illumina Rna-Seq Paired End Data
  Hello, I have Illumina 76bp paired end data for a zebrafish RNA-seq experiment and am basically ...
• Converting pair-end dataset to fastq
  I'm new to galaxy and am trying to use the cloudmap workflow to conduct "Hawaiian variant mapping...
• Reconstruct original fragment from paired end reads
  Hi, I would like to reconstruct my environemental 16S PCR fragments (slightly more than 300 bp) ...
• Need help with "Map with BWA for Illumina" tool
  Why can't I import my fastq file from my history? I am in the history with all files - gDNA reads...
• Remove "Unpaired" Reads From Quality-Filtered Pared-End Fastq Files.
  Hi there, I obtained two fastq files from GA paired end run. I filtered each file by quality usi...
• Trinity "Exceeded step memory limit" error?
  Hi, I'm trying to assemble a de novo transcriptome using ~270 million paired end reads in Trinit...
• Can I Convert Paired-End Datasets Into Single End Ones?
  Dear All, I have some paired-end datasets to be analyzed, but I am not sure about their Mean Inn...
• Merging Of Illumina Paired End Files
  I have 3 illumina paired end reads of exome capture of the sample. I want to assemble these reads...
• Problem with PEAR
  I have strange issue with Pear on my local Galaxy comparing to Main Galaxy: I have pair ends - R...
• How To Split Paired-End Dataset Of Fastq Format
  I downloaded RNA-seq dataset at FASTQ format from SRA of NCBI. I uploaded the dataset onto Galaxy...
• PEAR removed from the tool list?
  Dear Galaxy support, PEAR disappeared in the tool list. Yesterday (10th October 2017) it worked. ...
• Why I can't use some of the tools
  I have data from Illumina, as part1,fastq and part 2.fastq. First thing is that I want to join th...
• Tool barcode splitter not recognizing inputs (PEAR-assembled reads)
  I ran an Illumina 2 x 250 PER on PCR amplicons and received the data demultiplexed by the Index o...
• FASTQ Joiner or Interlacer problem
  Hello everyone, I am trying to use the FASTQ interlacer or joiner on my pair end read files. Aft...
• Tool in Galaxy for UMIs
  Hi, I'am new in NGS and not very familiar with data analysis. I'am wondering how can i proceed w...
• Memory allocation error while trying to align paired end reads using RNA STAR
  Hi This is my first time using Galaxy for RNA Seq analysis. After uploading and normalizing my r...
• Splitting Biased Paired End FASTQ data
  The FASTQ splitter in Galaxy warns that the tool only works if Paired-end data has equal length r...
• How to get only paired end or single end uniquely mapped reads with Bowtie2?
  Hello, I am using bowtie2 on galaxy to map ChIP-seq single end and paired end libraries to a ref...
• Assembler ABySS ERROR RUNNING COMMAND (abyss-3.sam.gz)
  Galaxy sequence assembler Abyss paired-end wrapper file path /home/shed_tools/__/repos/edward-ki...
• extract only unique mapped paired end reads
  Hello,  I aligned paired end reads with bwa 0.5.9. Next, I would like to extract only paired end...