12
votes
11
replies
16k
views
10 follow
2
votes
7
replies
667
views
updated 17 hours ago by
Jeremy Leipzig
21k
•
written 8 days ago by
Can Abdullah
•
0
2
votes
6
replies
272
views
updated 2 hours ago by
Jiyao Wang
▴
340
•
written 1 day ago by
Joseph
•
0
0
votes
5
replies
202
views
2
votes
4
replies
290
views
updated 19 hours ago by
Pierre Lindenbaum
157k
•
written 2 days ago by
RogueBiochemist
•
0
0
votes
4
replies
307
views
19 hours ago by
langziv
▴
50
0
votes
3
replies
107
views
0
votes
1
reply
117
views
0
votes
1
reply
103
views
0
votes
1
reply
96
views
0
votes
1
reply
68
views
0
votes
1
reply
68
views
0
votes
1
reply
84
views
0
votes
0
replies
73
views
16 hours ago by
camillab.
▴
140
0
votes
0
replies
9
views
Recent Votes
Recent Locations •
All
Australia, 9 minutes ago
Thailand, 11 minutes ago
Japan, 15 minutes ago
Israel, 45 minutes ago
China, 1 hour ago
United States, 1 hour ago
United States, 1 hour ago
Recent Awards •
All
Commentator to
dsull
★
4.8k
Popular Question to
natasha.sernova
★
3.9k
Popular Question to
ntsopoul
▴
50
Teacher to
benformatics
3.8k
Popular Question to
iislam
•
0
Recent Replies
Answer: Encountering Error while Running 'make vcf' in Biostar Handbook
by
Tully
•
0
@ialbert ,I am deeply immersed in the fog and request the help ,please
Comment: bedtools intersect by position & stand not working even with common regions
by
rfran010
▴
830
are you sure bedtools can handle the non-standard location of strand information?
Answer: Getting the overlap between two GTF files
by
rfran010
▴
830
Maybe somebody knows something I don't, but I feel like bedtools should be able to handle your gtf files directly.
If it's not done alre…
Answer: vcf.gz to vcf
by
Mark
★
1.3k
As the error says, the file is not compressed. In linux the file extension is essentially optional. The file could be named `my.vcf.txt` ye…
Answer: Search RCSB with a list of protein names?
by
Jiyao Wang
▴
340
You can use NCBI esearch to search the protein names against the structure database to get the PDB IDs, then retrieve the structures.
Answer: How to get ncol = nrow?
by
Mark
★
1.3k
Without your actual data, it's hard to assist. I think what you're asking is 'how do I rename the rows of my dataframe(s)'.
Taking the …
Comment: MAKER: WARNING: Could not get initialization lock. Trying Again...
by
GenoMax
134k
What kind of hardware are you running this on? You need to have the right kind of hardware (multiple CPU's not just cores), MPI libraries a…
Answer: Getting the overlap between two GTF files
by
Alex Reynolds
35k
Using `bedops --intersect` and `gtf2bed` will get their common genomic space:
```
bedops --intersect <(gtf2bed < transcripts.gtf) <(gtf2be…
Comment: Encountering Error while Running 'make vcf' in Biostar Handbook
by
Tully
•
0
```bash
# Obtain the makefile
curl -s http://data.biostarhandbook.com/make/snpcall.mk > Makefile
# Run the makefile
make vcf
```
Error me…
Comment: Encountering Error while Running 'make vcf' in Biostar Handbook
by
Tully
•
0
> System Information: Ubuntu 22.04 (WSL2)
>
> Shell: zsh
>
> Installation Verification: Yes, doctor.py OK
[1]: https://www.biostarhand…
Comment: Retrieve The Reads And Fastq From Bam File
by
Reem
•
0
Did it affect the bamtofastq output file? if so how did you solve the problem?
Thanks
Answer: How to import bigwig files into igvR
by
Trivas
★
1.5k
You could try seeing if this fixes your issue with rtracklayer: https://support.bioconductor.org/p/p133244/
Comment: Weirdness in annotation (missing allele frequencies)
by
Jeremy Leipzig
21k
0.60625 is 97/160 so if you have 80 individuals in your VCF that's an internal allele frequency, not gnomAD
Comment: Weirdness in annotation (missing allele frequencies)
by
Can Abdullah
•
0
Yes, I was confused as well. I think the same. Maybe Annovar uses some other resources besides gnomad, but it does not make sense. Also, I …
Traffic: 1000 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