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Trinity assembles transcript sequences from Illumina RNA-Seq data.
Usage
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module load bioinformatics/trinity/2.2.0
Assemble RNA-Seq data like so:
Trinity --seqType fq --left reads_1.fq --right reads_2.fq --CPU 6 --max_memory 20G
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Installation
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module load library/atlas/3.10.2 module load library/zlib/1.2.11 module load bioinformatics/bowtie/2-2.0.2 Build Trinity by typing 'make' in the base installation directory. cd /sw/bioinformatics/trinity/2.2.0 make ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Performing Unit Tests of Build ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ JellyFish: has been Installed Properly Inchworm: has been Installed Properly Chrysalis: has been Installed Properly QuantifyGraph: has been Installed Properly GraphFromFasta: has been Installed Properly ReadsToTranscripts: has been Installed Properly fastool: has been Installed Properly parafly: has been Installed Properly samtools-0.1.19 has been Installed Properly |
Reference