Question: Newbler 3 assembler download - assembly of highly heterozygous genome
0
gravatar for joneill4x
2.3 years ago by
joneill4x30
Canada
joneill4x30 wrote:

Hello all,

Does anyone know where I can obtain a copy of the Newbler v3.0 assembler?

I have managed to download and install v2.9, having obtained it from from the 454 official website. Link: http://454.com/contact-us/software-request.asp

However, v2.9 has a max read length of 2000, while v3.0 has a max read length of 30000. This is important for my work.

In the paper "The haplotype-resolved genome sequence of hexaploid Ipomoea batatas reveals its evolutionary history", the authors use Newbler v3.0 to assemble long reads (length < 29000). http://biorxiv.org/content/biorxiv/early/2016/07/18/064428.full.pdf

I am making a de-novo assembly of my own for a highly heterozygous diploid species and seek to emulate their assembly process.

Thank you, Joe

Thank you

assembly newbler • 2.0k views
ADD COMMENTlink modified 9 months ago by salgado70 • written 2.3 years ago by joneill4x30
1
gravatar for felipe.zoujiro
14 months ago by
felipe.zoujiro20 wrote:

Hi everyone,

This more than an answer to this issue is a request/question that hopes you can help me, guys!

The link you mentioned (http://454.com/contact-us/software-request.asp) is dead. I guess 454 is out-of-market. So, I am wondering if any of you that have obtained the Newbler software either v2.9 or v3.0 can share it with me?

Thanks in advance,

Felipe

ADD COMMENTlink written 14 months ago by felipe.zoujiro20
0
gravatar for lexnederbragt
2.3 years ago by
lexnederbragt1.2k
Oslo, Norway
lexnederbragt1.2k wrote:

Have you tried using http://454.com/contact-us/software-request.asp again? That should now give you version 3.0.

ADD COMMENTlink written 2.3 years ago by lexnederbragt1.2k

Hi lexnederbragt, thanks for your answer. I tried using that link again just now, but it still is showing only v2.9 available for download.

ADD REPLYlink written 2.3 years ago by joneill4x30
0
gravatar for salgado7
9 months ago by
salgado70
salgado70 wrote:

Hi all, please look into this link C: Is Newbler still available for download

ADD COMMENTlink written 9 months ago by salgado70
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