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• Trinity - problem while assembling fastqsanger reads
  After concatenating the all the forward reads together and doing the same with the reverse reads,...
• 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...
• Failiure in running Trinity
  Dear admin, I am trying to de novo assemble my paired-end data (2*100, 460 million reads), but th...
• De novo assembly -Trinity
  Hi All As my project makes a progress I would now like to use Trinity for de novo assembly. I ha...
• 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...
• Transcriptome assembly with Trinity-Jaccard_Clip
  Dear all May I implement a transcriptome assembly using the parameter --jaccard_clip in the wr...
• 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...
• Trinity + Unicycler assembly failures at https://usegalaxy.org
  Hi administrators, I tried to perform trinity assembly but an error has occurred "Remote job ser...
• read representation using trinity
  Is there any way to analyse the trinity assembly for RNA seq read representation and Transcriptom...
• Probem with the Trinity de-novo assembly for big dataset (128GB)
  I had 48 paired end samples, I concatinae all the 24 forward and reverse paired separately and tr...
• Problem with Trinity/Unicycler at https://usegalaxy.org -- Unicycler fixed, Trinity OPEN, follow for updates
  Hi, I've tried to execute my work using Trinity (Beta) via Galaxy. Every time I execute it shows...
• Metatranscriptomic reads alignment and assembly
  Hello. I have a set of metatranscriptomic Illumina paired-end reads. I need to align them agains...
• 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 ...
• 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...
• Trinity run failed at start- please help
  Hello, My Trinity run just failed with the error below. I'm trying to do a de novo assembly of ...
• Trinity assembly multiple files
  Dear Galaxy team, I am trying to assemble 12 paired reads at the same time using Trinity on Gala...
• problem with Trinity
  Good morning In this moment I have a job in Galaxy and I need assembly RNA-seq, but when I run t...
• 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...
• Trinity is not working..again?
  Hi all! Apparently there are troubles with trinity, again. The output of Trinity is an empty fi...
• 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...
• Trinity
  I want to run Trinity on the "test" instance of Galaxy, but there seems to be a problem. The anal...
• Trinity error with fasta input - solution: use fastq input instead
  I'm trying to use Trinity to do a de novo assembly from short reads. However the output file "As...