6
votes
5
replies
733
views
6
votes
6
replies
3.2k
views
6
votes
7
replies
1.7k
views
5
votes
10
replies
1.3k
views
5
votes
5
replies
266
views
5
votes
7
replies
2.7k
views
5
votes
19
replies
4.0k
views
8 follow
5
votes
11
replies
1.0k
views
5
votes
7
replies
856
views
5
votes
5
replies
7.3k
views
updated 29 days ago by
veldahan86
•
0
•
written 3.8 years ago by
Assa Yeroslaviz
★
1.8k
5
votes
5
replies
2.5k
views
5
votes
35
replies
3.7k
views
updated 10 months ago by
Jordan M Eizenga
▴
460
•
written 10 months ago by
anivlete
•
0
5
votes
3
replies
633
views
5
votes
6
replies
1.4k
views
updated 10 months ago by
Ram
43k
•
written 4.0 years ago by
Ranan Jyoti Sarma
▴
90
5
votes
7
replies
969
views
5
votes
5
replies
663
views
updated 4 months ago by
Ankit
▴
500
•
written 4 months ago by
zbeddingfield3
▴
10
5
votes
8
replies
2.0k
views
updated 6 months ago by
Jingjingzhang
•
0
•
written 3.7 years ago by
from the mountains
▴
230
5
votes
5
replies
1.8k
views
5
votes
3
replies
1.0k
views
updated 10 months ago by
Ram
43k
•
written 5.3 years ago by
Igor Lalin
•
0
5
votes
8
replies
3.7k
views
5
votes
5
replies
646
views
5
votes
5
replies
540
views
updated 4 months ago by
Ram
43k
•
written 4 months ago by
anasjamshed
▴
120
5
votes
4
replies
1.7k
views
5
votes
6
replies
1.7k
views
5
votes
6
replies
834
views
5
votes
8
replies
1.0k
views
4 months ago by
Researcher
▴
30
5
votes
6
replies
439
views
7 follow
updated 5 weeks ago by
Istvan Albert
100k
•
written 5 weeks ago by
Pumla
•
0
5
votes
1
reply
696
views
updated 6 months ago by
Jordan M Eizenga
▴
460
•
written 6 months ago by
Kyran
▴
30
5
votes
7
replies
970
views
updated 11 months ago by
supernovamik
•
0
•
written 4.4 years ago by
ee.mohseni.alert
▴
50
5
votes
2
replies
938
views
5
votes
8
replies
2.5k
views
updated 9 months ago by
Jordan M Eizenga
▴
460
•
written 16 months ago by
TN
•
0
5
votes
11
replies
1.4k
views
5
votes
4
replies
718
views
5
votes
10
replies
878
views
5
votes
3
replies
401
views
updated 9 weeks ago by
bioinfo_ga
▴
70
•
written 9 weeks ago by
ray
•
0
5
votes
8
replies
2.0k
views
5
votes
7
replies
1.5k
views
5
votes
1
reply
688
views
5
votes
2
replies
1.8k
views
5
votes
3
replies
553
views
updated 7 months ago by
Ram
43k
•
written 7 months ago by
sarahmanderni
▴
100
5
votes
5
replies
587
views
5
votes
8
replies
633
views
updated 3 months ago by
colindaven
6.4k
•
written 3 months ago by
oghzzang
▴
50
5
votes
7
replies
3.2k
views
8 follow
updated 6 months ago by
Istvan Albert
100k
•
written 5.9 years ago by
chris.bird
▴
10
5
votes
4
replies
1.2k
views
5
votes
1
reply
635
views
updated 8 months ago by
bk11
★
2.4k
•
written 8 months ago by
Manuel Sokolov Ravasqueira
▴
100
4
votes
6
replies
2.1k
views
updated 10 months ago by
Ram
43k
•
written 9.1 years ago by
Harish Sanja
▴
10
4
votes
11
replies
1.7k
views
updated 6 months ago by
Brian Bushnell
20k
•
written 8 months ago by
Y
•
0
4
votes
1
reply
642
views
updated 8 months ago by
LChart
3.9k
•
written 8 months ago by
leranwangcs
▴
120
4
votes
3
replies
609
views
4
votes
8
replies
1.8k
views
11 months ago by
eesha28112001
•
0
Recent Votes
Recent Locations •
All
UCLA, just now
France, 1 minute ago
Canada, 2 minutes ago
United States, 2 minutes ago
France/Nantes/Institut du Thorax - INSERM UMR1087, 8 minutes ago
United States, 9 minutes ago
United Kingdom, 10 minutes ago
Recent Awards •
All
Popular Question to
Lélé
•
0
Commentator to
dthorbur
★
1.9k
Popular Question to
maria.soler
•
0
Popular Question to
melissachua90
▴
70
Popular Question to
Lila M
★
1.2k
Popular Question to
Amr
▴
160
Commentator to
rpolicastro
13k
Recent Replies
Comment: cellranger error message
by
Max
•
0
I think the problem is your fastq_id. This should also read "RabhiN_PHLGEX". Hope this helps!
Comment: How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
by
Giulio Genovese
▴
390
@yokofakun is correct. Also, do notice that the GATK option `--RECOVER_SWAPPED_REF_ALT True` does not work with indels. In general, if your…
Comment: How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
by
Pierre Lindenbaum
161k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
Comment: How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
by
Pierre Lindenbaum
161k
I think this is useless, in the gatk doc:
> For each variant, the tool will look for the target coordinate, reverse-complement and left-al…
Comment: Too many unpaired forward reads found by Trimmomatic
by
GenoMax
142k
Ideally you will know which adapters to use but if you don't then programs like `fastp` can auto-detect them. You could also use `bbduk.sh`…
Comment: UMI-Tools knee-method has great influence on the results of white list
by
i.sudbery
19k
With the `--read2-only` option (which isn't available yet on the bioconda version), this will complain about a lack of `--bc-pattern`.
How…
Comment: RNA seq analysis
by
prifa
▴
10
it's raw data **fastq.gz**, so for example I have 4 different samples from different tissue, sample A with 3 replicates, samples B,C and D …
Answer: Filtering Multi-sample VCF file for all except one Genotype
by
Pierre Lindenbaum
161k
> The goal is to remove all the variants which are unique to the KWSBambina sample.
using jvarkit vcffilterjdk https://jvarkit.readthedo…
Comment: Too many unpaired forward reads found by Trimmomatic
by
SilhouetteQ
•
0
The first example used the adapter file NexteraPE-PE.fa, but it generated more than 50% unpaired data......
The content of NexteraPE-PE.fa…
Comment: Filtering Multi-sample VCF file for all except one Genotype
by
schmince
•
0
Ok so I definitely didn't understand at first what my goal was.
The goal is to remove all the variants which are unique to the KWSBambina…
Comment: Question about methylation location
by
dthorbur
★
1.9k
What data do you have? Generally, you start with sequencing data, which you need to clean and then map to a reference genome. Then dependin…
Comment: Too many unpaired forward reads found by Trimmomatic
by
GenoMax
142k
> when I didn't provide the adapter file
Still see the file here `ILLUMINACLIP:./NexteraPE-PE.fa:2:30:10 `, unless that is an empty file.
Comment: Too many unpaired forward reads found by Trimmomatic
by
SilhouetteQ
•
0
Interestingly, when I didn't provide the adapter file, the number of unpaired forward reads was significantly reduced:
TrimmomaticPE…
Comment: Alignment of samples with spike-in
by
GenoMax
142k
> but then if you only allow to map uniquely mapped reads, you are losing spike-in information,
How so? Spike-in's are generally unique s…
Traffic: 2934 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