User: BioGeek

gravatar for BioGeek
BioGeek140
Reputation:
140
Status:
Trusted
Location:
Last seen:
6 months ago
Joined:
3 years ago
Email:
j***********@gmail.com

Posts by BioGeek

<prev • 39 results • page 1 of 4 • next >
0
votes
3
answers
348
views
3
answers
Comment: C: How to extract coordinate of hard and soft clipped long reads ?
... > RF01 567 576 RF01_508_1107_4:0:0_0:0:0_af I think these are longreads location! Is this possible to get reference chromosome/scaffold/contig location ? ...
written 6 months ago by BioGeek140
0
votes
3
answers
4.9k
views
3
answers
Answer: A: Bioinformatics/Biotech Firms In India
... Here https://bioinformaticsonline.com/pages/view/1332/bioinformatics-companies-in-india ...
written 6 months ago by BioGeek140
0
votes
3
answers
348
views
3
answers
How to extract coordinate of hard and soft clipped long reads ?
... I wanted to extract the genome coordinate of all those location where longreads are soft/hard clipped. Genome ] [ __________________________________________________________________________________ --- ----------------------- ------------------------------- ...
clipped longreads mapping bam written 8 months ago by BioGeek140 • updated 8 months ago by Carambakaracho1.4k
0
votes
3
answers
3.0k
views
3
answers
Comment: C: Extending ends of sequences with the help of reads?
... Is this possible to use long-reads in tadpole? ...
written 11 months ago by BioGeek140
2
votes
1
answer
993
views
1
answer
PacBio and ONT reads difference !
... 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. ...
reads nanopore pacbio written 11 months ago by BioGeek140 • updated 11 months ago by h.mon26k
0
votes
0
answers
281
views
0
answers
Comment: C: Break the assembled genome by error-some regions !
... 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 11 months ago by BioGeek140
0
votes
0
answers
281
views
0
answers
Break the assembled genome by error-some regions !
... 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 ? ...
genome assembly breaks error ont written 11 months ago by BioGeek140
0
votes
0
answers
258
views
0
answers
Is there any mapper to map the long/short reads against phased genome?
... 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. ...
reads alignment mapper longreads phased written 13 months ago by BioGeek140
0
votes
0
answers
386
views
0
answers
Comment: C: How to extract all ONT reads that connect/overlaps two or more contigs ?
... mapping is done by minimap2 ...
written 16 months ago by BioGeek140
1
vote
0
answers
386
views
0
answers
How to extract all ONT reads that connect/overlaps two or more contigs ?
... I want to focus on all those reads that connect two or more contigs. How to extract ONLY those nanopore reads ? ...
reads nanopore scaffolding overlaps written 16 months ago by BioGeek140

Latest awards to BioGeek


Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2225 users visited in the last hour