0
votes
0
replies
6
views
0
votes
2
replies
41
views
3
votes
5
replies
183
views
0
votes
5
replies
529
views
1
vote
10
replies
758
views
42 minutes ago by
DKA
▴
40
0
votes
0
replies
29
views
2 hours ago by
hemantcnaik
•
0
0
votes
2
replies
710
views
0
votes
3
replies
124
views
updated 4 hours ago by
GenoMax
141k
•
written 5 hours ago by
Bertalan_Takacs
▴
90
0
votes
0
replies
52
views
updated 1 hour ago by
Ram
43k
•
written 5 hours ago by
glaciya2018
•
0
795
votes
167
replies
141k
views
109 follow
updated 3 months ago by
Biostar
2.7k
•
written 7.4 years ago by
Istvan Albert
100k
0
votes
0
replies
38
views
5 hours ago by
David Langenberger
11k
0
votes
0
replies
57
views
0
votes
14
replies
3.4k
views
6 follow
updated 7 hours ago by
drstalinantony28
•
0
•
written 2.2 years ago by
ymj
▴
10
0
votes
1
reply
76
views
updated 4 hours ago by
Sofia
•
0
•
written 8 hours ago by
mawigoj318
•
0
0
votes
0
replies
66
views
10 hours ago by
salias
•
0
4
votes
5
replies
237
views
0
votes
2
replies
124
views
0
votes
0
replies
56
views
updated 1 hour ago by
Ram
43k
•
written 10 hours ago by
newuser2024
•
0
0
votes
0
replies
46
views
0
votes
1
reply
95
views
updated 1 hour ago by
Ram
43k
•
written 12 hours ago by
ahmad.sajad4541
•
0
0
votes
0
replies
53
views
updated 1 hour ago by
Ram
43k
•
written 13 hours ago by
carlopecoraro2
★
2.5k
0
votes
0
replies
50
views
0
votes
2
replies
159
views
2
votes
2
replies
142
views
updated 15 hours ago by
analyst
▴
30
•
written 20 hours ago by
lorena9132
•
0
0
votes
0
replies
67
views
7
votes
2
replies
206
views
updated 21 hours ago by
geneontologyhelp
▴
390
•
written 2 days ago by
catherine.teyssier
•
0
0
votes
1
reply
155
views
updated 21 hours ago by
Istvan Albert
100k
•
written 2 days ago by
Abeer
•
0
0
votes
4
replies
233
views
0
votes
1
reply
104
views
updated 16 hours ago by
Mensur Dlakic
★
27k
•
written 22 hours ago by
benguyarenbeyaz98
•
0
0
votes
2
replies
186
views
updated 1 hour ago by
Ram
43k
•
written 22 hours ago by
v.berriosfarias
▴
140
2
votes
1
reply
159
views
1
vote
1
reply
130
views
updated 23 hours ago by
Pierre Lindenbaum
161k
•
written 23 hours ago by
Biostar
2.7k
1
vote
1
reply
107
views
updated 1 day ago by
GenoMax
141k
•
written 1 day ago by
heelpPlease
•
0
2
votes
9
replies
776
views
0
votes
10
replies
341
views
0
votes
1
reply
116
views
updated 1 day ago by
bk11
★
2.3k
•
written 1 day ago by
alphaflylizard
•
0
3
votes
3
replies
176
views
0
votes
3
replies
196
views
updated 21 hours ago by
Istvan Albert
100k
•
written 1 day ago by
Dylan
•
0
1
vote
4
replies
167
views
4
votes
11
replies
454
views
3
votes
13
replies
591
views
0
votes
0
replies
75
views
1 day ago by
ohtang7
▴
40
3
votes
0
replies
94
views
updated 1 day ago by
Ram
43k
•
written 1 day ago by
carlopecoraro2
★
2.5k
2
votes
2
replies
391
views
updated 1 day ago by
Pierre Lindenbaum
161k
•
written 8 months ago by
AshleeThomson
▴
80
0
votes
1
reply
130
views
8
votes
5
replies
4.9k
views
0
votes
5
replies
254
views
5
votes
4
replies
603
views
14 hours ago by
kirillkirilenko
▴
40
0
votes
0
replies
76
views
0
votes
3
replies
354
views
Recent Locations •
All
Brazil, 2 minutes ago
United States, 3 minutes ago
College Station, TX, 3 minutes ago
United Kingdom, 4 minutes ago
State College, PA, Penn State, 5 minutes ago
India, 6 minutes ago
Singapore, 8 minutes ago
Recent Awards •
All
Popular Question to
daffodil
▴
10
Popular Question to
Russ
▴
500
Popular Question to
camillab.
▴
160
Popular Question to
pramach1
▴
40
Popular Question to
Adyasha
•
0
Popular Question to
sehriban.buyukkilic
▴
10
Popular Question to
O.rka
▴
710
Recent Replies
Comment: Creating Synthetic Sequences for a ML Model
by
biochugs
•
0
Thanks for the input. I'll continue to think of more ideas that may be achievable.
Comment: PCA plot (Suggestions Needed)
by
Jeremy
▴
890
You could also try kernel PCA, which is a non-linear form of PCA, although this will be more time-consuming.
Comment: Troubleshooting RNA-seq data with DNA contamination
by
DKA
▴
40
I have unstranded RNA-seq data. Please share the tool with me, if you do not mind.
Comment: PCA plot (Suggestions Needed)
by
Mensur Dlakic
★
27k
Everything that @f1f58aed said, plus that there may be no data manipulation that will give you the clusters you expected. Sometimes there a…
Answer: Creating Synthetic Sequences for a ML Model
by
Mensur Dlakic
★
27k
It is a good idea, though I don't see how it would work in practice.
I think you will encounter at least additional problem on top of da…
Answer: PCA plot (Suggestions Needed)
by
Jeremy
▴
890
Right now, the WT samples are clustering together, but you have one mutant sample off by itself, which could be an outlier. How did you sc…
Comment: Adding CB tag to bam file
by
GenoMax
141k
@yokofakun had written this: https://www.biostars.org/p/336965/
https://github.com/ruqianl/appendCB may also be useful.
Comment: Troubleshooting RNA-seq data with DNA contamination
by
GenoMax
141k
Please post information about your tool as a `tools` category post. Don't wait/ask other users to ask you.
Comment: Adding CB tag to bam file
by
Maria
•
0
Sorry for the delay in my answer, I got sidetracked.
I am using
```samtools addreplacerg -r "@RG\tID:$cell" -o $cell.bam -h $LINE```
bu…
Answer: Troubleshooting RNA-seq data with DNA contamination
by
haibol2017
▴
10
We just developed a R package to tackle this problem.
Do you have stranded or unstranded RNA-seq data contaminated with gDNA?
If you wou…
Comment: How to trim transcripts using information from NCBI contamination screen report
by
GenoMax
141k
`bbduk.sh` can use the transcripts as input. There is a `adapters.fa` included in the `resources` directory of the distribution. You can do…
Comment: PCA plot (Suggestions Needed)
by
swbarnes2
14k
Cross posted here (including the code used to make up the counts):
https://support.bioconductor.org/p/9157911/#9157959
Comment: To get p-values for the TPM
by
swbarnes2
14k
RSEM returns a kind of p-value if you run it with the "prior-enhanced" option. Did you do that? Are you completely sure that's the value y…
Comment: How to trim transcripts using information from NCBI contamination screen report
by
Lada
▴
30
i checked both of these programs (`bbduk` and `fastp`) and it seems they use reads as inputs (fastq formats)... how can I trim my transcrip…
Comment: AGeNT LocatIt
by
barslmn
★
2.1k
He is already giving 32G, 320G for marking duplicates for exome is excessive. Is there a specific reason for using the tool?
Traffic: 2441 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