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 

 

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
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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