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• (Closed) Local Galaxy with grey process
  Hi all, I have a local galaxy installed and today I try submit Bowtie2 process and in my histor...
• Failure preparing job-Bowtie2
  Dear Biostars, I hope you are well. While attempting to use Bowtie2, I noticed a "failure prep...
• Problem using bowtie2
  Hi everyone I´m Miguel, I´m using galaxy for a scholar research. I´m having a problem using bow...
• TopHat Error stating that (installed) Bowtie2 is not installed
  I tried to try 'TopHat (v.2.1.0)' locally to align some RNA-Seq data to a reference human genome....
• Bacterial Sequence for Variant Analysis
  I am analyzing paired-end data for bacterial genome and have done the following steps: *FAST...
• cufflink trancript analysis
  Dear sir, i have run my cufflink analysis on friday but my job does not execute... please help me...
• Problems running Bowtie2!
  Hi everyone, I'm trying to map a paired-end seq. to the human genome using Bowtie2. Unfortunately...
• Problems with Bowtie 2
  Is there a problem using bowtie 2 since 1200 yesterday. None of my jobs submitted since yesterday...
• Job queued for a longer time
  Hi I have trouble in complete the analysis. Cuff diff is taking longer time for completing. Can...
• Yeast genome reference in Bowtie2
  I am trying to do some data analysis of my Chip Seq data in yeast. And I stuck at the alignment s...
• local galaxy tophat2 built-in genome
  Hi, I am new user to do bioinformatic analysis and know a little about python. Right now, I succ...
• TopHat error only on one dataset?
  Hi all, I've run my RNA-Seq data through tophat for the rn5 genome and it worked as expected. I...
• Tophat vs Bowtie2
  Hello, I took the fasq files and ran Tophat then Bowtie2. Is it okay to run tophat first then bo...
• Error executing Bowtie2: bam_index_build2() not yet implemented
  I'm trying to execute Bowtie2 in Galaxy but I get the following Dataset generation error: Trace...
• Tophat Error: segment-based junction search failed with err =1
  Hi Everybody, I have this error message when I try to do Top Hat algorithm on my Groomer FASTQ f...
• Error when running Bismark with pair end/Full parameter list
  Hi, When trying to launch a Bismark with bowtie2 I get the following error: Error executing too...
• Tophat And Bowtie2
  Hi, I installed bowtie2 and when running tophat I get the following error: Error in tophat: ...
• queued for trinity tool
  Hi everybody, I am trying to execute a RNA-Seq analysis using Trinity tool but the job is queued...