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=== ABySS ===
 
=== ABySS ===
[[SW:GCATemplates|GCATemplates]] available: [https://github.tamu.edu/cmdickens/GCATemplates/blob/master/templates/ada/run_abyss_1.9.0_pe_ada.sh ada (pe)] [https://github.tamu.edu/cmdickens/GCATemplates/blob/master/templates/ada/run_abyss_1.9.0_pe_mp_ada.sh ada (pe+mp)]
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[[SW:GCATemplates|GCATemplates]] available: [https://github.tamu.edu/cmdickens/GCATemplates/blob/master/templates/grace/run_abyss_1.9.0_pe_singlenode_grace.sh grace (single-node pe)] [https://github.tamu.edu/cmdickens/GCATemplates/blob/master/templates/grace/run_abyss_1.9.0_pe_multinode_grace.sh grace (multi-node pe)]
  
 
ABySS [http://www.bcgsc.ca/platform/bioinfo/software/abyss homepage]
 
ABySS [http://www.bcgsc.ca/platform/bioinfo/software/abyss homepage]
  
  module load ABySS/1.9.0-intel-2015B-Python-2.7.10-maxk256
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Use the 'module spider' command to see the available versions of ABySS
  
The latest versions of ABySS are listed below:
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   module spider abyss
   ABySS/1.9.0-intel-2015B-Python-2.7.10
 
  ABySS/2.0.2-foss-2018a
 
  ABySS/2.0.2-gompi-2019a
 
  ABySS/2.0.3-intel-2017b
 
  
 
ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads.  
 
ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads.  

Latest revision as of 10:52, 8 July 2021

ABySS

GCATemplates available: grace (single-node pe) grace (multi-node pe)

ABySS homepage

Use the 'module spider' command to see the available versions of ABySS

 module spider abyss

ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads.

The single-processor version is useful for assembling genomes up to 100 Mbases in size.

The parallel version is implemented using MPI and is capable of assembling larger genomes.

The other ABySS 1.9.0 modules are configured with a maxk of 128.