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Trinity (version 0.0.1)

JM:

Amount of memory to allocate to Jellyfish for Kmer catalog construction

CPU:

Number of CPUs to use by Trinity

Paired or Single-end data?:

Left/Forward strand reads:

Right/Reverse strand reads:

Strand-specific Library Type:

Group pairs distance:

Maximum length expected between fragment pairs

Path reinforcement distance:

Minimum read overlap required for path extension in the graph

Use Additional Params?:

Trinity is a de novo transcript assembler that uses RNA-seq data as input. This tool runs all Trinity commands--Inchworm, Chrysalis, and Butterfly--in a single pass.