0
votes
0
replies
6
views
0
votes
1
reply
30
views
0
votes
2
replies
68
views
1
vote
3
replies
94
views
0
votes
1
reply
71
views
0
votes
0
replies
51
views
1
vote
3
replies
192
views
0
votes
1
reply
103
views
0
votes
1
reply
117
views
2
votes
1
reply
110
views
0
votes
0
replies
60
views
1
vote
4
replies
210
views
0
votes
0
replies
62
views
0
votes
0
replies
62
views
23 hours ago by
hellokwmin
•
0
0
votes
0
replies
79
views
1
vote
0
replies
75
views
0
votes
4
replies
217
views
9
votes
16
replies
659
views
0
votes
0
replies
85
views
1 day ago by
user230613
▴
350
0
votes
4
replies
232
views
updated 1 day ago by
Istvan Albert
99k
•
written 1 day ago by
HERMAN
▴
10
0
votes
0
replies
92
views
1 day ago by
Jaykishan
•
0
0
votes
0
replies
98
views
1 day ago by
e.iich
•
0
0
votes
3
replies
210
views
1
vote
1
reply
147
views
updated 1 day ago by
Basti
★
1.8k
•
written 2 days ago by
a.basitkhan1990
▴
30
2
votes
1
reply
221
views
updated 12 hours ago by
Kevin Blighe
86k
•
written 2 days ago by
jabbari.parnian
▴
30
0
votes
0
replies
102
views
0
votes
0
replies
114
views
0
votes
1
reply
180
views
updated 1 day ago by
Arup Ghosh
3.2k
•
written 3 days ago by
Mehwish
▴
10
0
votes
1
reply
233
views
0
votes
3
replies
331
views
updated 3 days ago by
ATpoint
78k
•
written 4 days ago by
manuelmourato25
•
0
0
votes
0
replies
221
views
0
votes
3
replies
295
views
0
votes
1
reply
230
views
0
votes
0
replies
153
views
4 days ago by
bioinfo
▴
60
0
votes
0
replies
154
views
0
votes
3
replies
265
views
0
votes
0
replies
790
views
0
votes
0
replies
148
views
0
votes
0
replies
158
views
0
votes
0
replies
163
views
0
votes
2
replies
271
views
0
votes
2
replies
257
views
updated 5 days ago by
Raony Guimarães
★
1.3k
•
written 5 days ago by
ThePlaintiff
▴
80
2
votes
8
replies
578
views
5
votes
2
replies
235
views
4 days ago by
Rafael Soler
★
1.2k
1
vote
2
replies
190
views
updated 5 days ago by
WouterDeCoster
47k
•
written 5 days ago by
manaswiniparija3
▴
10
1
vote
0
replies
134
views
0
votes
3
replies
279
views
0
votes
0
replies
106
views
0
votes
0
replies
116
views
6 days ago by
turcoa1
•
0
0
votes
0
replies
123
views
Recent Votes
Recent Locations •
All
Hong Kong, 5 minutes ago
Hong Kong, 7 minutes ago
South Korea, 8 minutes ago
South Korea, 9 minutes ago
Canada, 10 minutes ago
Cambridge, MA, 10 minutes ago
United States, 19 minutes ago
Recent Awards •
All
Popular Question to
O.rka
▴
710
Popular Question to
Daniel
▴
30
Popular Question to
prasundutta87
▴
660
Popular Question to
RNAseqer
▴
250
Scholar to
Devon Ryan
104k
Scholar to
Pierre Lindenbaum
158k
Recent Replies
Comment: Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not pres
by
dsull
★
5.0k
Yeah, sometimes it looks "prettier" to plot p-value rather than adjusted p-value; although either one is technically ok to plot (even multi…
Comment: How to get unaligned reads and aligned reads into separate files from SAM/BAM?
by
rpolicastro
12k
I suppose if you really wanted to do it in one pass pysam would be an option. Courtesy of ChatGPT with a few modifications, and tested to s…
Comment: frequency plot for peaks
by
Ankit
▴
400
what is your txdb?
can you explain your experiment in detail?
Comment: Using ggplot2 to make barplots of RNASeq data - maintaining sample metadata when
by
cmdcolin
★
3.4k
paste the file in csv format and a R wizard might come along and help :)
Comment: Using ggplot2 to make barplots of RNASeq data - maintaining sample metadata when
by
rpolicastro
12k
Your intuition was correct. You want to make two separate data frames and join them on sample name. This code is untested but will probably…
Comment: Generate Read counts from bam file
by
ATpoint
78k
It has nothing to do with low complexity. You always map to the entire genome since the reads can come from the entire genome. If you take …
Comment: CHIPSEQ : Cut AND Run , DiffBind Parameters
by
ATpoint
78k
DiffBind uses DESeq2 for differential analysis and its method to moderate logFCs. When noise is high and there is little evidence for diffe…
Comment: p-value combination methods
by
dsull
★
5.0k
Was this response written by a LLM? It's a useful response but it doesn't really answer the initial question...
In response to the OP ques…
Comment: Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not pres
by
RNAseqer
▴
250
Well, because I want to also draw attention to nominally significant genes as they are subjected to follow up experiments and would be nice…
Comment: Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not pres
by
Nitin Narwade
★
1.5k
Actually, to add an **EXACT line/mark** for one value based on another is impossible (for me at least). What you can do is, select the min…
Comment: Generate Read counts from bam file
by
Enrique
•
0
Great appreciation. If you don't use restrictive arguments in the mapping, is better to use the entire genome to avoid the false positives …
Comment: Generate Read counts from bam file
by
ATpoint
78k
No, absolutely not. Mapping to such a tiny subset leads to false positives. Use the entire genome that includes the mt reference.
Answer: Generate Read counts from bam file
by
Enrique
•
0
Hello, I recommend you using the mitochondrial reference genome. For the GTF file (or GFF, they are in general the same), checkout this pos…
Comment: How to deeply sequence long inserts
by
Brian Bushnell
19k
Merging paired reads is a good idea. Then you get nice, long reads... and actually, as long as you have enough coverage, you can just mer…
Traffic: 1606 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