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• Please add the rice genome to tophat
  Please add the rice genome to tophat Please add the rice genome to tophat Please add the rice g...
• TopHat is not running
  Hi, I uploaded TopHat jobs from last Friday and it hasn't start running yet. Is there a proble...
• tophat multi read alignment
  Hi, How to do --prefilter multi read hits in Galaxy TopHat Regards Lakshman
• TOPHAT ERROR tool execution
  Hi,   i tried running my datasets and tophat gives  error all the time.  Thanks
• TopHat for illumina
  Hello, Any idea when the TopHat for illumina tool will come back? Thanks. Greetings, Sergio
• Version Tophat And Cufflinks
  Hi,   May I ask what is the version of TopHat and cufflinks in the galaxy? Thanks a lot! weimin zhao
• Tophat vs Bowtie2
  Hello, I took the fasq files and ran Tophat then Bowtie2. Is it okay to run tophat first then bo...
• Error message in Tophat
  I am receiving the message "an error occurred setting the metadata for this dataset" on all jobs ...
• Tophat not working
  Dear Sir, Tophat not working for SRA reads Eg SRR912644 tophat not working for this SRA Accessi...
• Is There Size Limit Of Dataset For Running Tophat?
  Hi All, Is there a size limit of dataset for running Tophat at Galaxy? If there is, how many rea...
• Tophat vs HISAT
  Hi, I've been using Tophat to align RNA-seq reads followed by Cufflinks to estimate FPKM. Now tha...
• Tophat fails again and again
  Hi Jen, I have some problems with one of the dataset and tophat fails again and again. Will you p...
• tophat error can not find transcript filr tf.
  run tophat returns this error message: can not find transcript file TF. Any suggestions?
• Tophat Version In Galaxy
  Dear all: I have GALAXY installed in a UNIX server. BOWTIE works fine but TOPHAT and CUFFDIFF cra...
• Please add the zebrafish genome to tophat
  Can you add the latest zebrafish genome danio_rerio_zv10 to the tophat reference genome? Thank yo...
• Tophat
  Hello, I am a new galaxy user, still trying to find my way around. Is there a way to run Tophat ...
• Does Tophat Output *.Accepted Hits File Contain Headers?
  Dear All, I want to use the Tophat output files with ".accepted hits" to do analysis outside Gal...
• Tophat is not anymore among the galaxy tools
  I have been using tophat to quantify sequences in my RNAseq analysis along this year.. But today,...
• How to make multiple Tophats inside a workflow to run sequentially rather than simultaneously?
  In my workflow on Galaxy, I have 6 fastq samples to run through Tophats and their output bam fil...
• Need help with "Tophat for Illumina" tool
  I do not know why: "RNA-Seq FASTQ file:" can not been selected?      Tool name: Tophat for Il...
• Changing Bowtie Parameters In Tophat
  My apologies if this has been covered before but I am using Galaxy Main and wonder if, when runni...
• TopHat not processing RNA-seq FASTQ file
  Usually have no problem with TopHat processing of RNA-seq FASTQ files. Currently using a file th...