1
vote
6
replies
6.1k
views
0
votes
0
replies
1.0k
views
0
votes
2
replies
1.1k
views
2
votes
1
reply
4.1k
views
updated 4.7 years ago by
Biostar
20
•
written 7.7 years ago by
Ameya Kulkarni
▴
10
0
votes
0
replies
831
views
4.7 years ago by
saeedmn2005
•
0
1
vote
2
replies
1.4k
views
updated 3 months ago by
louiseadore0808
▴
10
•
written 4.7 years ago by
Aynur
▴
60
6
votes
4
replies
1.1k
views
updated 4.7 years ago by
Mensur Dlakic
★
30k
•
written 4.7 years ago by
alienzj
▴
30
0
votes
1
reply
1.2k
views
0
votes
2
replies
1.4k
views
updated 4.7 years ago by
Mensur Dlakic
★
30k
•
written 4.7 years ago by
aman.akash2008
•
0
6
votes
5
replies
1.7k
views
updated 4.7 years ago by
linyao
•
0
•
written 6.2 years ago by
manjumoorthy95
▴
60
2
votes
3
replies
1.4k
views
1
vote
0
replies
741
views
updated 4.7 years ago by
Biostar
20
•
written 4.9 years ago by
estoakes91
▴
10
0
votes
2
replies
1.8k
views
updated 4.7 years ago by
Pierre Lindenbaum
166k
•
written 4.7 years ago by
quentin54520
▴
120
2
votes
1
reply
1.3k
views
updated 4.7 years ago by
rpolicastro
13k
•
written 4.7 years ago by
rishav513
▴
30
1
vote
1
reply
3.5k
views
updated 4.7 years ago by
ruiyan_hou
•
0
•
written 5.0 years ago by
greatgene719
▴
10
5
votes
3
replies
2.6k
views
1
vote
1
reply
1.2k
views
updated 4.7 years ago by
Gordon Smyth
★
8.6k
•
written 4.8 years ago by
demoraesdiogo2017
▴
120
3
votes
1
reply
1.7k
views
4.7 years ago by
susheelbhanu
•
0
2
votes
2
replies
2.1k
views
updated 4.7 years ago by
Dave Carlson
★
2.2k
•
written 4.7 years ago by
gilsorek12
▴
10
2
votes
4
replies
4.6k
views
0
votes
0
replies
1.3k
views
updated 2.7 years ago by
Ram
45k
•
written 4.7 years ago by
Sergio Martínez Cuesta
▴
230
0
votes
5
replies
2.8k
views
updated 4.7 years ago by
Biostar
20
•
written 4.8 years ago by
zhangdengwei
▴
210
1
vote
3
replies
1.1k
views
0
votes
3
replies
4.1k
views
4.7 years ago by
Bala Hatun
•
0
1
vote
9
replies
2.4k
views
0
votes
0
replies
1.3k
views
5
votes
5
replies
1.6k
views
updated 4.7 years ago by
ATpoint
90k
•
written 4.7 years ago by
minghuiguo448
•
0
2
votes
6
replies
5.6k
views
1
vote
4
replies
1.4k
views
updated 4.7 years ago by
rpolicastro
13k
•
written 4.7 years ago by
luca
▴
70
0
votes
4
replies
1.1k
views
updated 4.7 years ago by
rpolicastro
13k
•
written 4.7 years ago by
Omar Mohamed
•
0
4
votes
6
replies
14k
views
updated 4.7 years ago by
nikhilshinde0909
•
0
•
written 11.5 years ago by
arronar
▴
290
0
votes
0
replies
1.0k
views
4.7 years ago by
bcopeland64
•
0
0
votes
1
reply
4.8k
views
0
votes
8
replies
1.2k
views
0
votes
0
replies
582
views
4.7 years ago by
inebrahim99
•
0
1
vote
4
replies
945
views
4.7 years ago by
Andrew Liu
▴
10
9
votes
5
replies
9.0k
views
1
vote
1
reply
1.4k
views
updated 4.7 years ago by
Alex Reynolds
36k
•
written 4.7 years ago by
gordian.knot0
•
0
11
votes
8
replies
14k
views
updated 4.1 years ago by
Kevin Blighe
★
90k
•
written 4.7 years ago by
sugus
▴
150
0
votes
5
replies
1.8k
views
updated 4.7 years ago by
Mensur Dlakic
★
30k
•
written 4.7 years ago by
cyntsc10
•
0
0
votes
3
replies
1.5k
views
0
votes
0
replies
2.1k
views
3
votes
2
replies
4.5k
views
2
votes
3
replies
1.1k
views
updated 4.7 years ago by
Biostar
20
•
written 4.9 years ago by
pt.taklifi
▴
70
0
votes
0
replies
976
views
updated 2.7 years ago by
Ram
45k
•
written 4.7 years ago by
genomicshr
▴
30
2
votes
3
replies
1.6k
views
1
vote
2
replies
2.7k
views
updated 4.7 years ago by
Biostar
20
•
written 8.6 years ago by
rafa.rios.50
▴
60
1
vote
5
replies
1.6k
views
4.7 years ago by
tadeja.klade
▴
10
4
votes
5
replies
3.0k
views
2.6 years ago by
predeus
★
2.1k
1
vote
7
replies
2.9k
views
4.7 years ago by
leranwangcs
▴
150
Recent Votes
Recent Locations •
All
United States, just now
United Kingdom, just now
United States, 13 minutes ago
Australia, 53 minutes ago
France/Nantes/Institut du Thorax - INSERM UMR1087, 1 hour ago
Australia, 1 hour ago
Iran, 1 hour ago
Recent Awards •
All
Popular Question to
hello_bioinf
▴
250
Popular Question to
tacrolimus
▴
150
Popular Question to
biotrekker
▴
110
Popular Question to
zizigolu
★
4.4k
Popular Question to
Biomed-jeh
▴
70
Popular Question to
gernophil
▴
130
Popular Question to
Lila M
★
1.3k
Recent Replies
Answer: How excactly is the Q30 is calculated?
by
GenoMax
154k
[**Phred quality scores**][1] have been in use since the 1990s and early days of human genome project. They were co-opted in the fastq form…
Comment: best practice for diploid variant calling
by
Matteo Ungaro
▴
130
@kevin thanks I was experimenting with the following since I already pursued most of the approaches you mentioned and, in practice, they ar…
Answer: Chip-seq analysis Diffbind
by
ATpoint
90k
I think the results are expected. a) n=2 is underpowered, for any assay and in particular for ChIP-seq which has considerable noise. b) you…
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Wu-Sheng Zhang
▴
10
Hi @arup , after changing the file name following the read length, I can process them using cellranger arc successfully. Thank you very muc…
Comment: Visualize methylation status in Pacbio Hifi read
by
cmdcolin
★
4.4k
(as the JBrowse dev) I'm glad to hear this. if you see any trouble with it feel free to let me know, I have tried to keep up to date with m…
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Wu-Sheng Zhang
▴
10
Got it! I will try to switch their name and re-run the cellranger arc. Thank you very much, @arup !
Answer: low quality data or file name swapping -- cellranger arc errors when processing
by
Arup Ghosh
3.5k
The barcode files with 24nt read length W71_LUNGrep2_S6_L001_R3_001.fastq.gz and W71_LUNGrep2_S6_L002_R3_001.fastq.gz should be the R2.
Comment: ID unifiying across different datasets
by
GenoMax
154k
Each database has their own method of annotation/validation. Depending on resources available there may be a lag between the databases in t…
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Wu-Sheng Zhang
▴
10
Hi @arup , thank you very much for your suggestions, and here are the results -- they seems correct. May I have your suggestions? Thank you…
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding
by
samuel.a.odonnell
▴
640
I don't believe merqury ignores softmasked (lower case) nucleotides so I don't think that is the case.
From what it sounds like, during th…
Comment: ID unifiying across different datasets
by
zizigolu
★
4.4k
Thanks a lot to be helpful
I’m trying to build a complete `UniProtID` to `GeneSymbol` lookup table and I’m running into a wall. I’ve alrea…
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
by
thomas.heigl.ibk
▴
20
thanks for the quick reply.
i posted the screenshot.
gatk-internally, there is still the difference using -ERC or not, priot is getting …
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
by
thomas.heigl.ibk
▴
20
here the igv view. showing the histogram for all samples plus the reads for one:
![enter image description here][1]
and expanded view of …
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Arup Ghosh
3.5k
Check the read lengths to make sure the files are correct.
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
by
Pierre Lindenbaum
166k
> Any suggestions or help you could share
please, show us an IGV screenshot of the position
GATK realign the reads locally, discards read…
Traffic: 3145 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