User: BioGeek
BioGeek • 130
- Reputation:
- 130
- Status:
- Trusted
- Location:
- Last seen:
- 1 month, 2 weeks ago
- Joined:
- 2 years, 5 months ago
- Email:
- j***********@gmail.com
Posts by BioGeek
<prev
• 37 results •
page 1 of 4 •
next >
0
votes
3
answers
136
views
3
answers
... I wanted to extract the genome coordinate of all those location where longreads are soft/hard clipped.
Genome
] [
__________________________________________________________________________________
--- ----------------------- ------------------------------- ...
written 6 weeks ago by
BioGeek • 130
• updated
6 weeks ago by
Carambakaracho • 620
0
votes
3
answers
2.6k
views
3
answers
... Is this possible to use long-reads in tadpole? ...
written 4 months ago by
BioGeek • 130
2
votes
1
answer
310
views
1
answer
... There are many mapper that uses ONT and PacBio flag separately. I always wonder why? Why not one flag for all kind of long reads? Is this to compensate error rate ? What if I corrected all reads before mapping ? Sorry for my ignorance, but I am curious about it. ...
0
votes
0
answers
162
views
0
answers
... Falcon were used to assemble the genome. After mapping, I notice such cases https://dazzlerblog.files.wordpress.com/2017/04/screen-shot-2017-04-18-at-9-54-01-am.png
I wanted to break the genome by those "error-some" regions (by middle of X and Y in the figure) and re-scaffold them. How to break the ...
written 4 months ago by
BioGeek • 130
0
votes
0
answers
162
views
0
answers
... How to break the assembled genome by error-some regions? I map ONT reads against the genome and it return many misaligned regions, how to break the genome into fragment on those regions ? ...
written 4 months ago by
BioGeek • 130
0
votes
0
answers
154
views
0
answers
... I am looking for a tool, that can along all the long reads against phased genome. I tried the traditional haploid mapper, but it split the reads due to very similar phased genome sequences. ...
written 5 months ago by
BioGeek • 130
0
votes
0
answers
243
views
0
answers
... mapping is done by minimap2 ...
written 9 months ago by
BioGeek • 130
1
vote
0
answers
243
views
0
answers
... I want to focus on all those reads that connect two or more contigs. How to extract ONLY those nanopore reads ? ...
written 9 months ago by
BioGeek • 130
0
votes
2
answers
563
views
2
answers
... from to value
1 VH1 JH1 88
2 VH3 JH1 273
3 VH4 JH1 10
4 VH5 JH1 0
5 VH6 JH1 0
6 VH1 JH2 43
7 VH3 JH2 113
8 VH4 JH2 153
9 VH5 JH2 0
10 VH6 JH2 50
11 VH1 JH3 226
12 VH3 JH3 432
13 VH4 JH ...
written 10 months ago by
BioGeek • 130
0
votes
2
answers
563
views
2
answers
... Thanks for the script.
I wanted to plot multiple hits scenarios, where single reference fragment/block is mapped to multiple locations in target.
As shown above, h1 fragments have multiple hits on q1 and q2.
I tried with your suggested script, but fail miserably :(
...
written 10 months ago by
BioGeek • 130
Latest awards to BioGeek
Popular Question
4 months ago,
created a question with more than 1,000 views.
For How to differentiate between "horizontal gene transfer" and "contamination" in NGS data?
Popular Question
5 months ago,
created a question with more than 1,000 views.
For How to differentiate between "horizontal gene transfer" and "contamination" in NGS data?
Student
21 months ago,
asked a question with at least 3 up-votes.
For How to differentiate between "horizontal gene transfer" and "contamination" in NGS data?
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 1153 users visited in the last hour