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• Trimmomatic output after filtering paired end data - fastqsanger vs fastqsanger.gz
  After running Trimmomatic on a paired end PolyA RNA-seq dataset where both forward and reverse re...
• 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?"...
• Paired end illumina RNAseq reads - running trinity with paired trimmed files and adding unpaired as single read?
  We have paired end Illumina HiSeq 4000 reads that we are working to remove adaptors and trim base...
• trimmomatic with paired-end
  Dear Biostar, I have paired-end sequencing data I would like to trim using trimmomatic. I have r...
• Galaxy-using trimmomatics with ChIP seq pair ended (only one file with both reads)
  I am trying to run Trimmomatics in Galaxy under "pair end (as collection)" for afastqsanger.gz ...
• Trinity, Unicycler Job Error "Remote job server indicated a problem running or monitoring this job."
  When attempting Trinity assemblies with Trimmomatic paired end files, the run fails and I receive...
• Error with Unicycler at Galaxy Main https://usegalaxy.org
  Dear Biostars Members, I shall kindly ask a question considering bacterial genome assembly with ...
• Trinity run preprocessing
  I am new to Trinity and galaxy instance (https://usegalaxy.org/). I have 17 samples pair ended. I...
• Trimmomatic on paiera end data
  Hi I am trying to use Trimmomatic on my Sanger Illumina 1.9 paired end data. Trimmomatic ask fo...
• Nextera pair end adapter cleaning
  Can I use Nextera pair end adapter option in Galaxy Trimmomatic program for cleaning my illumina ...
• Paired end fastq files
  Hi, I have a question regarding paired end FastQ files. I have two individual seq-round for the ...
• Cannot select fastq data in Galaxy Trimmomatic
  Hi Galaxy-verse I am trying to open my uploaded paired-end MiSeq reads in Trimmomatic from withi...
• NGS: QC and manipulation
  Hello, I'm a beginner (my email zare@ibt.lt) of using Galaxy. I tried to use Trimmomatic or Trim ...
• Trimmomatic workflow error - failed to find output_name
  Hi, I am getting a error while executing a workflow which involves trimmomatic and bwa tools. In...
• RNAseq data to be processed in two ways: (i) mapping to de novo Trinity-based transcriptome and (ii) mapping a relatively new genome
  Hello all, I am new to RNAseq data and learning this process step by step, so I have a few quest...
• 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...
• Tophat "Mean Inner Distance Between Mate Pairs"
  Hi all, When mapping pair end RNA-seq reads using tophat, we need to type in "Mean Inner Distanc...
• Trimmomatic and Trim Galore are not working.
  I am performing an RNA-seq and am trying to trim adapter sequences with Trim Galore. When I made ...
• miRNA seq data TRIMMOMATIC
  I am trying to analyze microRNA sequencing data for 8 datasets ( each dataset is a cell line). I ...
• Removal of primers using Trimmomatic
  Hello, Trimmomatic has an illuminaClip feature which appears to be able to cut custom sequences ...
• No fastqsanger dataset available
  I uploaded (get date) two fastq paired files, but none are available for Trim and other applicati...