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Repository trinity_abundance_estimates_to_matrix
Owner: iuc
Synopsis: Build expression matrix (from the Trinity tool suite)
Trinity represents a method for the efficient and robust de novo reconstruction of transcriptomes from RNA-seq data

https://github.com/trinityrnaseq/trinityrnaseq
Type: unrestricted
Revision: 5:8b5039bdf1f6
This revision can be installed: True
Times cloned / installed: 1405

Repository README files - may contain important installation or license information

Trinity memory usage ==================== As described on the official Trinity website `FAQ `_, trinity requires a large amount of memory to perform the assembly: "roughly ~1G of RAM per 1M reads to be assembled" By default, this tool is configured to limit the memory consumption to 1G. You might need to lower this limit if the machine(s) executing the jobs have less memory available. If you have a lot of reads to assemble and a machine with enough memory, you can increase it. In both cases, you can set the TRINITY_MAX_MEMORY environmental variable in the destination section of the job_conf.xml file: 1G

Contents of this repository

Name Description Version Minimum Galaxy Version
for a de novo assembly of RNA-Seq data by Trinity 2.4.0.0 any

Categories
Transcriptomics - Tools for use in the study of Transcriptomics.
RNA - Utilities for RNA