User: muralis.bio

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Posts by muralis.bio

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What should I give for average insert size in config file of SOAP scaffolder..
... Hi, I am doing scaffolding using contigs (i got these from SOAP de novo run previously) and mate-pairs (3k & 8K) using SOAP. I am preparing config file for scaffolding and i dont know what should i give for average insert size (avg_ins=?), should i give average contig size in this case, can any ...
assembly written 5.2 years ago by muralis.bio0 • updated 5.2 years ago by maheshhbg20
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Comment: C: What should be the minimum 454 read (single-end) length for de novo assembly run
... Hi Here is my read length distribution Sorry i could not get an weblink based image Can i get some idea of what should should be the min read length now..! Regards ...
written 5.2 years ago by muralis.bio0
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Comment: C: What should be the minimum 454 read (single-end) length for de novo assembly run
... following is my read length distribution... greater than (>) small or equalto <= No of seq 0 60 163078 60 120 1320262 120 180 1128226 180 240 1101897 240 300 1257487 300 400 3928630 400 500 4911455 500 600 2488924 600 700 2936272 700 800 3610518 800 900 4271892 900 1000 5989034 1000 1100 51355 ...
written 5.2 years ago by muralis.bio0
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What should be the minimum 454 read (single-end) length for de novo assembly run
... Hi, I have 454 (single-end) data with 20x coverage for a plant genome with 1.2 Gb size. Can anyone give me pointer on what should be the minimum read length i should use for a de novo assembly run by Celera Caboge Thanks in advance... ...
assembly written 5.2 years ago by muralis.bio0 • updated 5.2 years ago by rtliu2.1k
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How much computing resources does an ABySS run take
... 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) ...
assembly written 5.2 years ago by muralis.bio0 • updated 5.2 years ago by rtliu2.1k

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