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Question: How to assemble scaffolds using Galaxy
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gravatar for nhpheonix
3.9 years ago by
nhpheonix • 0
China
nhpheonix • 0 wrote:

I haved downloaded scaffold sequences from the Internet.

Can I use Galaxy to assemble the scaffold sequences? which tools should I choose？
assembly • 1.2k views
ADD COMMENT • link •
modified 3.9 years ago by Jennifer Hillman Jackson ♦ 25k • written 3.9 years ago by nhpheonix • 0
1

What do you mean by assemble scaffold. Scaffolds are already assembled contigs that can't be merged further.

ADD REPLY • link written 3.9 years ago by Bjoern Gruening ♦ 5.1k

I mean useing the assembled contigs to generate whole genome sequence

ADD REPLY • link written 3.9 years ago by nhpheonix • 0
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gravatar for Jennifer Hillman Jackson
3.9 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Bjoerns comments are correct - but I am wondering of you really mean that you wish to perform some type of analysis with the current assembly you have. Compare to other genomes? Expression/variant analysis (along with NGS reads from specific conditions)? 

A search right here in Galaxy biostars will bring up much prior Q&A on the subject, such as what you are seeing over at the far right -->

You can also examine tutorials and related materials through our wiki/main public Galaxy site. Start here:
http://galaxyproject.org > Learn, Train, Support, etc.
http://usegalaxy.org > Pages and if you are familiar with Galaxy, exploring other Shared resources will be helpful

Thanks, Jen, Galaxy team
ADD COMMENT • link written 3.9 years ago by Jennifer Hillman Jackson ♦ 25k
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