User: orange
orange • 30
- Reputation:
- 30
- Status:
- New User
- Location:
- Korea, Republic Of
- Last seen:
- 1 year, 8 months ago
- Joined:
- 3 years, 5 months ago
- Email:
- 1*********@qq.com
Posts by orange
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... hi,everyone
when I use minia 2.0.3 with kmer=141,it fail.But with kmer=127,it work!
So minia have kmer limit ?
...
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3
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3
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... why not try SOAPdenovo instead of perl ? Did you not aseembly genome sequence before ?
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written 3.2 years ago by
orange • 30
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10
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10
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... hi，ScaffMatch support sam and fastq。
...
written 3.3 years ago by
orange • 30
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... For bacteria assembly with pacbio reads, a unitig is easy at most time. But how to check if it is truly circual ?
I tried CA_best_edge_to_GML.py,and an error happen like "
Traceback (most recent call last):
File "CA_best_edge_to_GML.py", line 51, in
id1, lib_id, best5, o1, best3, o3 = l
ValueErr ...
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4
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Answer:
A: Tool for reducing contigs
... try AHA or PBjelly2 or sspace-longread for scaffoding .
...
written 3.4 years ago by
orange • 30
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... maybe you can try rabbit
...
written 3.4 years ago by
orange • 30
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... My firt thought is use SOAP2 to get diploid contigs,then use these contigs and PE reads to correct subreads ,inally use FALCON.
...
written 3.4 years ago by
orange • 30
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... Hi,everyone.I have a project about 50M fungi diploid denovo assembly.I had assembly 37M fungi haploid with pacbio reads and illuminate and Miseq reads.For haploid genome, I used Ectool and HGAP3. But for diploid genome,I have doubt about how to correct subreads,and use which assembler .
And I have ...
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Answer:
A: Post Genome Assembly
... when I click "ADD COMMENT " or "ADD REPLY"(color of the button is gray),but it didnot work ..someome tell me why ?
...
written 3.4 years ago by
orange • 30
1
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5
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1.5k
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5
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Answer:
A: Post Genome Assembly
... Contiguator or Medusa seem to be based reference genome,so it is not denovo ...
...
written 3.4 years ago by
orange • 30
Latest awards to orange
Popular Question
22 months ago,
created a question with more than 1,000 views.
For fungi diploid genome denovo assembly by pacbio reads
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