3 days ago by
harter-ainsworth.izaak
•
0
1
vote
2
replies
229
views
0
votes
0
replies
109
views
3
votes
2
replies
201
views
1
vote
5
replies
341
views
0
votes
1
reply
164
views
1
vote
3
replies
269
views
1
vote
7
replies
374
views
0
votes
1
reply
164
views
1
vote
6
replies
355
views
2
votes
1
reply
161
views
2
votes
4
replies
447
views
updated 4 days ago by
Elisabeth Gasteiger
★
2.3k
•
written 7 days ago by
Mery
•
0
0
votes
0
replies
101
views
0
votes
6
replies
295
views
4 days ago by
alice005201314
•
0
1
vote
4
replies
274
views
5
votes
3
replies
281
views
updated 3 days ago by
Brian Bushnell
19k
•
written 4 days ago by
jiyoung
▴
20
0
votes
5
replies
542
views
updated 4 days ago by
Wenhai
•
0
•
written 6 weeks ago by
javierbelmor
•
0
0
votes
0
replies
107
views
0
votes
3
replies
4.0k
views
0
votes
0
replies
335
views
0
votes
2
replies
223
views
0
votes
2
replies
320
views
updated 3 days ago by
rajabolacuan
•
0
•
written 10 days ago by
Camilo Andres
▴
40
0
votes
1
reply
254
views
updated 4 days ago by
Zhenyu Zhang
★
1.1k
•
written 8 days ago by
jomagrax
▴
40
1
vote
0
replies
100
views
0
votes
6
replies
375
views
3
votes
2
replies
198
views
2
votes
3
replies
301
views
updated 4 days ago by
ATpoint
78k
•
written 4 days ago by
r.shiasi3897
▴
10
0
votes
1
reply
165
views
updated 4 days ago by
ATpoint
78k
•
written 4 days ago by
anasjamshed
▴
120
1
vote
2
replies
244
views
1
vote
1
reply
189
views
updated 4 days ago by
Istvan Albert
99k
•
written 4 days ago by
Guitout
•
0
0
votes
5
replies
313
views
updated 1 day ago by
Istvan Albert
99k
•
written 4 days ago by
Bjorn
•
0
3
votes
0
replies
160
views
9
votes
15
replies
788
views
4
votes
2
replies
1.9k
views
updated 4 days ago by
colindaven
5.7k
•
written 2.4 years ago by
kamanovae
▴
100
0
votes
0
replies
99
views
4 days ago by
user230613
▴
350
0
votes
4
replies
271
views
updated 4 days ago by
Istvan Albert
99k
•
written 4 days ago by
HERMAN
▴
10
0
votes
7
replies
424
views
4 days ago by
Foad
▴
10
0
votes
0
replies
107
views
5 days ago by
Jaykishan
•
0
1
vote
1
reply
168
views
0
votes
3
replies
239
views
2
votes
1
reply
156
views
updated 5 days ago by
Pierre Lindenbaum
158k
•
written 5 days ago by
rejoeraymond776
▴
10
0
votes
2
replies
205
views
updated 4 days ago by
Basti
★
1.9k
•
written 5 days ago by
a.basitkhan1990
▴
30
1
vote
2
replies
186
views
updated 5 days ago by
ATpoint
78k
•
written 5 days ago by
a.basitkhan1990
▴
30
1
vote
1
reply
167
views
updated 5 days ago by
Basti
★
1.9k
•
written 5 days ago by
a.basitkhan1990
▴
30
4
votes
8
replies
585
views
4 days ago by
davidmaimoun
▴
50
2
votes
1
reply
241
views
updated 3 days ago by
Kevin Blighe
86k
•
written 5 days ago by
jabbari.parnian
▴
30
4
votes
5
replies
1.7k
views
updated 5 days ago by
pippo1980
•
0
•
written 9 months ago by
spence.lank
▴
10
0
votes
0
replies
113
views
0
votes
1
reply
187
views
0
votes
0
replies
127
views
Recent Votes
Recent Locations •
All
Thailand, 3 minutes ago
Bologna, 7 minutes ago
India, 9 minutes ago
Italy, 18 minutes ago
Sweden, 19 minutes ago
UK, 20 minutes ago
Yalta, NBG-NSC, 21 minutes ago
Recent Awards •
All
Popular Question to
seta
★
1.8k
Popular Question to
endre.sebestyen
▴
10
Popular Question to
beausoleilmo
▴
560
Commentator to
Brian Bushnell
19k
Popular Question to
Gama313
▴
120
Popular Question to
nanodano
▴
30
Popular Question to
shome
▴
10
Recent Replies
Comment: Yes .. BBMap can do that! - Part III clumpify (mark (and dedupe) duplicates with
by
GenoMax
136k
Yes that should be true. I will let https://www.biostars.org/u/14684/ confirm.
Comment: From TPM to raw counts
by
Gama313
▴
120
Thanks for the answe and the linkI used bioinfokit tpm formula to calculate tpm from bulk which is the same formula given in your link:
A= …
Comment: From TPM to raw counts
by
Gama313
▴
120
Thanks Brian for the suggestion. However, I did the whole process, from bulk counts generation, to data transformation and scrna deconvolut…
Answer: Are 10x cellranger-arc ATAC bam files deduplicated?
by
swbarnes2
13k
My experience with regular 10x bam files is that duplicates are not removed, but they are flagged as duplicates. So take a look at the …
Comment: Can I use TCGA-LUAD RNAseq count that had already normalized by RSEM in Limma-vo
by
fluke
•
0
Thanks a lot for your answer, I’m confused between RSEM expected count and RSEM normalized count. I’m working on this dataset from UCSC ht…
Answer: From TPM to raw counts
by
Istvan Albert
99k
In principle, the TPM formula can be reverted, see the timeless post
* [What the FPKM? A review of RNA-Seq expression units][1]
In p…
Comment: Low coverage whole genome sequencing reveal excess heterozygosity for multiple S
by
beausoleilmo
▴
560
You're right, I wasn't explaining the problem clearly. Thanks for the directions!
- The depth; coverage ~3.00X ± 2.50 SD
- The sequen…
Comment: Using metagenome assembly and binning to identify and mitigate contamination in
by
Mensur Dlakic
★
25k
All good points, especially about multiple copies of single-copy genes. I am doing error-correction in my assemblies, but was making an edu…
Comment: Can I use TCGA-LUAD RNAseq count that had already normalized by RSEM in Limma-vo
by
CTLong
▴
20
Yes, normalized RSEM counts from TCGA can be used as input for Limma Voom. Please check this post https://support.bioconductor.org/p/63981/…
Comment: How to obtain data on the coordinates of the Exon region from UCSC
by
ayasu
•
0
Sorry for the delay in expressing my thanks.
I found the advice to look at the information from MySQL very useful.
I will also refer to t…
Comment: From TPM to raw counts
by
Brian Bushnell
19k
I'm posting this as a comment instead of an answer specifically because it's just what I would do and I don't know if it's the best approac…
Comment: Using metagenome assembly and binning to identify and mitigate contamination in
by
Brian Bushnell
19k
In most cases error-correction should take care of error-spawned fake minor alleles, though...
> If you want to convince yourself of this,…
Answer: Using metagenome assembly and binning to identify and mitigate contamination in
by
Mensur Dlakic
★
25k
It is a valid question, and I particularly like when posters err on the side of providing more than less detail. Metagenomic binning can be…
Answer: Low coverage whole genome sequencing reveal excess heterozygosity for multiple S
by
Brian Bushnell
19k
I don't understand your plot. Perhaps a legend would help? I also don't know what you mean by "genotype frequency"; is that the ratio of …
Comment: Does GNOMAD use all LOFTEE LoF filters?
by
AMARU
•
0
Can you post the commands you used?
I am having some issues running that plugin on vep v110. It appears in fields but it doesn't annotat…
Traffic: 901 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