Question: How much computing resources does an ABySS run take
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gravatar for muralis.bio
5.3 years ago by
muralis.bio0 wrote:

Hi,
I have Illumina short read (paired-end) data with 127x coverage and mate-pair (3K & 8K) data of total 450 GB FASTQ files for a plant genome with 1.2 Gb size. Can anyone give me pointer on how much of computing resources (time duration for the run, storage space reqquired for outputfiles etc) does an ABySS run take.

Thanks in advance...

assembly • 1.3k views
ADD COMMENTlink modified 5.3 years ago by rtliu2.1k • written 5.3 years ago by muralis.bio0
0
gravatar for rtliu
5.3 years ago by
rtliu2.1k
New Zealand
rtliu2.1k wrote:

I would suggest you post such question to abyss mailing list;

 

The Table S1. Assembly execution times in white spruce genome paper using abyss:

k=109 / unitig contig Scaffold

Peak # CPU Cores 1,380 288 36

Time (hr) 38 155 104

Peak Memory (GB) 4,333 73 62

ADD COMMENTlink modified 5.3 years ago • written 5.3 years ago by rtliu2.1k
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