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• fastq splitter problem
  fastq splitter is not working on paired end read for some of my file and produce output file with...
• 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...
• Pair end alignment using HISAT2
  Hi, I have a FASTQ file that is a paired library. I want to align this FASTq file to Hg19 genome...
• Can we map fastq files with paired ends using bwa mem on galaxy?
  I have a collection of timmed fastq files from WES, each contain paired ends. Is it possible to m...
• Use paired collection on wrapper
  Hi, I'm try to write a wrapper for a tool that performed subsampling of fastq file. The script i...
• Paired End FASTQ files
  Hi all, I have a question regarding paired end FASTQ files for chip-seq analysis. Which followi...
• Initial Qc And Grooming For Illumina Hiseq2000 Paired End Rnaseq Data
  I am trying to do RNAseq analysis on Paired end data from the Hiseq2000. I have about 50 files f...
• 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...
• Structurefold Iterative Mapping Input Fastq
  Regarding the tool structurefold, iterative mapping on Galaxy accepts one fastq at a time as inpu...
• 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 ...
• Which Galaxy tool can concatenate fastq files from different lanes of flow-cell?
  Which tool on Galaxy can I use to merge my fastq files from lanes 1,2,3, and 4 of a single librar...
• trimgalore on interleaved paired-end fastq files
  Hi, I'm analyzing interleaved paired-end fastq files downloaded via fastq-dump. I am trying to r...
• Need help with "MACS" tool--program setting
  Hi, I have a question about running MACS tool for my chip-seq data to call the peaks for the tra...
• paired-end sequencing or ChIA-PET
  I want to look at original ChIA-PET datasets (FASTQ). It's a kind of paired-end sequencing. The s...
• Trinity run preprocessing
  I am new to Trinity and galaxy instance (https://usegalaxy.org/). I have 17 samples pair ended. I...
• Error from HISAT2 when using fasta data retrieved from Get Data: EBI SRA
  I have uploaded files from EBI then I run the HIST with the following setting Source for the re...
• Bowtie 2 output read
  I am using galaxy platform to run Bowtie 2. I have illumina paired end reads (file#1 and file#2)...
• Help! I'm using trimmomatic in Galaxy, but it doesn't recognize a part of input dataset.
  I'm using Trimmomatic to trimming paired end reads. When I set "Single-end or paired-end reads?"...
• Sample For Video For Example 3 In Ngs Analyses In Galaxy
  Hi, I am watching the video 'Example 3 - mapping paired-end Illumina run and visualizing results...
• Combining The Paired Reads From Illumina Run
  Hi, I have two fastq files with the forward(/1) and reverse(/2) paired reads. The reads are not ...