Description

atram website

aTRAM does targeted de novo assembly of loci from paired-end Illumina runs and consists of the following tools:

format_sra.pl: this script creates an aTRAM database from an Illumina paired-end short-read archive.
aTRAM.pl: this script runs aTRAM with a target sequence and the formatted short-read archive.

Required Modules

Serial

atram

System Variables

HPC_ATRAM_DIR

Citation

If you publish research that uses atram you have to cite it as follows: Allen, JM, DI Huang, QC Cronk, KP Johnson. 2015\. aTRAM automated target restricted assembly method a fast method for assembling loci across divergent taxa from next-generation sequencing data. BMC Bioinformatics 16:98 DOI 10.1186/s12859-015-0515-2

Validation

Validated 4/5/2018

ATRAM