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• How long does galaxy-trinity program take to denovo assembly
  Hello Admin, How long does galaxy-trinity program take to denovo assembly of a 2*100 bp paired-e...
• Trinity "Exceeded step memory limit" error?
  Hi, I'm trying to assemble a de novo transcriptome using ~270 million paired end reads in Trinit...
• Trinity unusual error
  Hi all! I got twice the same error by running Trinity on Galaxy, that is: > Thread 1 termina...
• How to set Trinity parameter:--jaccard_clip
  Hi all, Does any know how to set --jaccard_clip in trinity? Seems there is no option for this, ...
• Where can I find the Trinity statistics?
  Hi, This is maybe a stupid question, but I am new to RNA sequencing and the Galaxy environment -...
• Trinity run preprocessing
  I am new to Trinity and galaxy instance (https://usegalaxy.org/). I have 17 samples pair ended. I...
• Queue times to run Trinity?
  Hello, I'm rather new to Galaxy. I'm trying to run de novo assembly for RNAseq data using Trinit...
• Suggestions For De Novo Assembly Plant Transcriptome Without Reference
  Dear Galaxy Expert, I would like to use Galaxy to de-novo assembly single-end read illumina data...
• empty file returned after Trinity run
  After atempting to run Trinity (3rd time!) I received the following log: -------------- Trinity ...
• Extract assembled transcripts from Cufflinks gtf without to use reference genome
  Hi all, I know there were similar questions, but unfortunately I couldn't find proper answer for...
• How do I combine multiple SE libraries in a single Trinity run?
  I have two SE librarys I need to assemble together with Trinity. Library one has 7928922 read pa...
• Fetch Taxonomic Representation and Kraken
  Hello, I need to do a quick analysis of taxonomy for a small set of Illumina reads (~1200), and ...
• Failed to run trinity on a fastq file
  I have uploaded a ~3GB fastq file downloaded from SRA database and filtered it with fastx toolkit...
• Normalization on Single End and Paired End reads
  Hi there. I want to assemble a transcriptome with Trinity using reads that are both paired- and ...
• problem in transcriptome assembly
  I successfully assembled my raw reads to generate assembly. But when I concatenate the reads, the...
• Trinity with multiple datasets
  Hello, I am running trinity on 4 data sets (2 left reads, 2 right reads) and I want it to be com...
• BAM file manipulations
  Hi I have made a whole assembly of RNA seq data using Trinity. The assembled file generated has ...