Redundans

Description

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Redundans pipeline assists an assembly of heterozygous genomes. Program takes as input assembled contigs, sequencing libraries and/or reference sequence and returns scaffolded homozygous genome assembly. Final assembly should be less fragmented and with total size smaller than the input contigs. In addition, Redundans will automatically close the gaps resulting from genome assembly or scaffolding.

Environment Modules

Run module spider REPLACE to find out what environment modules are available for this application.

System Variables

• HPC_{{#uppercase:REPLACE}}_DIR - installation directory
• HPC_{{#uppercase:REPLACE}}_BIN - executable directory
• HPC_{{#uppercase:REPLACE}}_DOC - documentation directory
• HPC_{{#uppercase:REPLACE}}_EXE - test directory

Citation

If you publish research that uses REPLACE you have to cite it as follows:

Leszek P. Pryszcz and Toni Gabaldón (2016) Redundans: an assembly pipeline for highly heterozygous genomes. NAR. doi: 10.1093/nar/gkw294