0
votes
1
reply
35
views
1
vote
6
replies
230
views
updated 10 minutes ago by
GenoMax
151k
•
written 1 day ago by
Luca Arbore
▴
10
1
vote
7
replies
2.3k
views
838
votes
170
replies
178k
views
112 follow
updated 5 weeks ago by
Biostar
3.6k
•
written 8.5 years ago by
Istvan Albert
102k
2
votes
2
replies
98
views
2 hours ago by
Andrew
•
0
1
vote
1
reply
41
views
0
votes
0
replies
37
views
4 hours ago by
Physalia-courses
★
2.6k
0
votes
0
replies
37
views
0
votes
0
replies
43
views
2
votes
1
reply
88
views
updated 7 hours ago by
Mensur Dlakic
★
29k
•
written 8 hours ago by
marongiu.luigi
▴
740
0
votes
0
replies
54
views
0
votes
0
replies
49
views
9 hours ago by
this_is_me_trying
•
0
1
vote
2
replies
110
views
updated 5 hours ago by
GenoMax
151k
•
written 10 hours ago by
genomics_student
•
0
0
votes
3
replies
666
views
0
votes
3
replies
371
views
0
votes
1
reply
256
views
updated 11 hours ago by
agis.maulana12
•
0
•
written 5 days ago by
Wenhai
•
0
3
votes
4
replies
190
views
updated 18 hours ago by
GenoMax
151k
•
written 22 hours ago by
anthony.santana.703.j
▴
30
0
votes
1
reply
133
views
updated 22 hours ago by
LChart
4.9k
•
written 1 day ago by
ton_of_questions
•
0
2
votes
2
replies
429
views
updated 22 hours ago by
this_is_me_trying
•
0
•
written 3 months ago by
lijiangres
▴
20
7
votes
6
replies
265
views
updated 1 day ago by
colindaven
7.5k
•
written 1 day ago by
SomeOne
▴
180
0
votes
1
reply
204
views
updated 1 day ago by
shenwei356
8.7k
•
written 1 day ago by
curiousfellow@123
•
0
7
votes
2
replies
402
views
updated 1 day ago by
colindaven
7.5k
•
written 7 days ago by
anna
▴
70
2
votes
1
reply
207
views
updated 1 day ago by
Mensur Dlakic
★
29k
•
written 2 days ago by
Rushikesh
▴
10
7
votes
7
replies
2.1k
views
6 follow
0
votes
2
replies
593
views
5
votes
9
replies
655
views
0
votes
0
replies
130
views
0
votes
2
replies
180
views
1 day ago by
J.F.Jiang
▴
930
2
votes
2
replies
204
views
10 hours ago by
Mark
▴
50
5
votes
2
replies
367
views
0
votes
4
replies
253
views
updated 2 days ago by
Michael
55k
•
written 2 days ago by
María José
▴
10
0
votes
2
replies
184
views
14
votes
19
replies
8.2k
views
10 follow
2
votes
0
replies
192
views
0
votes
0
replies
149
views
1
vote
1
reply
227
views
9
votes
7
replies
3.0k
views
updated 4 days ago by
Damianos P. Melidis
▴
60
•
written 6.5 years ago by
DanielC
▴
210
0
votes
4
replies
508
views
0
votes
2
replies
311
views
0
votes
0
replies
867
views
updated 5 days ago by
GenoMax
151k
•
written 5 days ago by
salma.sarker
•
0
0
votes
0
replies
264
views
5 days ago by
xinguok794
•
0
5
votes
1
reply
561
views
updated 5 days ago by
LChart
4.9k
•
written 7 days ago by
anita.szabo08
▴
10
1
vote
2
replies
377
views
0
votes
3
replies
381
views
0
votes
1
reply
381
views
0
votes
1
reply
327
views
2
votes
3
replies
387
views
updated 6 days ago by
shelkmike
★
1.6k
•
written 6 days ago by
synthiiihuh
•
0
0
votes
2
replies
366
views
1 day ago by
gil.hornung
▴
100
2
votes
4
replies
439
views
0
votes
3
replies
371
views
updated 5 hours ago by
Arup Ghosh
3.3k
•
written 6 days ago by
Shazel
•
0
Recent Votes
Recent Locations •
All
Antartida, just now
Greece, 5 minutes ago
Memphis, TN, 9 minutes ago
Bologna, 9 minutes ago
Brazil, 11 minutes ago
United States, 11 minutes ago
United States, 13 minutes ago
Recent Awards •
All
Popular Question to
ssko
▴
20
Popular Question to
Physalia-courses
★
2.6k
Popular Question to
i.sudbery
21k
Popular Question to
marongiu.luigi
▴
740
Popular Question to
debitboro
▴
270
Recent Replies
Comment: Assembly issues
by
GenoMax
151k
Please post `galaxy` related help questions on their help forum for prompt response: https://help.galaxyproject.org/
They can see your dat…
Comment: Use taxdb tp get scientific names in local BLAST output
by
GenoMax
151k
> Do I need to get the taxids in a different way in this case?
Yes. You can get the accession to taxID mapping file from https://ftp.ncbi.…
Comment: is there a way to get SRA info (Paired Library, Sample id, Seq Tech... etc) usin
by
Wayne
★
2.1k
Tagging this with a comment because the expansive title of the original question makes this feature prominently in search results...
Ther…
Comment: Use taxdb tp get scientific names in local BLAST output
by
Luca Arbore
▴
10
Thank you very much Genomax. Now, because there may be a misunderstanding I need to clarify the following:
I do not have the nt database d…
Answer: Search all SRA data for sequence? Raw reads only
by
Wayne
★
2.1k
There's now [Logan Search](https://logan-search.org/). (presently it covers through the end of 2023)
>"Given a DNA sequence, the service…
Comment: Is this Rosalind inspired project actually useful?
by
Andrew
•
0
Thanks for the reply!
It definitely has been useful on a personal level to grow the functionality of this for my specific use case because…
Answer: Is this Rosalind inspired project actually useful?
by
jared.andrews07
★
18k
That functionality can be found in [biopython](https://biopython.org/wiki/Documentation), which is the most general bioinformatics toolkit …
Answer: Subset a GAM (graph alignment) file
by
glenn.hickey
▴
530
For the first 1000 reads:
```
vg view -a myreads.gam | head -n1000 | vg view -a -G -J - > myreads_1000.gam
```
For downsampling like …
Answer: Use taxdb tp get scientific names in local BLAST output
by
GenoMax
151k
With `blast+ v.2.16`.
Get the sequences for `diptera` from "nt" blast db.
$ blastdbcmd -db nt -taxids 7147 -outfmt %f > test.fa
Whil…
Comment: Still bad phred score after fastp
by
Arup Ghosh
3.3k
By default, the quality score threshold is `15`. So if you have not specified a value for `--qualified_quality_phred` or `--average_qual`, …
Comment: Server Requirements for long read data analysis
by
GenoMax
151k
EPI2ME workflows available from ONT for sake of completeness: https://nanoporetech.com/products/analyse/epi2me
A number of pre-made NF wor…
Answer: How to automate blasting contigs?
by
Mensur Dlakic
★
29k
There is nothing to automate if all the contigs are in a single file.
blastn -query contigs.fna -db nr -task blastn -out contigs_vs_nr…
Comment: Use taxdb tp get scientific names in local BLAST output
by
Luca Arbore
▴
10
Thank you for replies. Fast headers of downloaded sequences look like this
grep "^>" diptera_coi_030625.fasta | head -n 5
>AB0…
Answer: Server Requirements for long read data analysis
by
Michael
55k
Like always, it depends on what you want to do and at what scale. The most resource-intensive step determines the minimum requirements of t…
Answer: 9th Berlin Summer School in NGS Data Analysis 2025 (June 30 - July 4, 2025) -- S
by
ecSeq Bioinformatics
▴
20
Good news! Due to the high demand, we have enlarged the room and extended the registration deadline to 20 June!
Traffic: 2920 users visited in the last hour
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by the
version 2.3.6
version 2.3.6