updated 30 minutes ago by
Gordon Smyth
★
7.0k
•
written 8 hours ago by
Guille
•
0
0
votes
1
reply
58
views
0
votes
0
replies
24
views
0
votes
1
reply
71
views
updated 3 hours ago by
Gordon Smyth
★
7.0k
•
written 5 hours ago by
pairedttest
▴
10
2
votes
6
replies
1.8k
views
7 follow
0
votes
0
replies
63
views
4
votes
8
replies
368
views
795
votes
167
replies
142k
views
109 follow
updated 3 months ago by
Biostar
2.7k
•
written 7.4 years ago by
Istvan Albert
100k
3
votes
6
replies
431
views
7 follow
updated 5 hours ago by
GenoMax
141k
•
written 3 days ago by
qudrat.nii
▴
10
1
vote
1
reply
96
views
0
votes
0
replies
55
views
0
votes
0
replies
53
views
19
votes
11
replies
14k
views
10 follow
2
votes
2
replies
191
views
3
votes
0
replies
97
views
updated 5 hours ago by
Ram
43k
•
written 16 hours ago by
Claire Watson
▴
60
0
votes
2
replies
166
views
updated 5 hours ago by
Ram
43k
•
written 1 day ago by
The_PyPanda
▴
10
0
votes
0
replies
96
views
17 hours ago by
HarperReed
•
0
3
votes
3
replies
168
views
1
vote
0
replies
68
views
0
votes
0
replies
69
views
0
votes
0
replies
69
views
0
votes
1
reply
98
views
0
votes
0
replies
66
views
22 hours ago by
turcoa1
•
0
3
votes
3
replies
197
views
0
votes
0
replies
78
views
0
votes
0
replies
91
views
0
votes
1
reply
128
views
updated 1 day ago by
ATpoint
82k
•
written 1 day ago by
AaronJaime
•
0
0
votes
2
replies
184
views
0
votes
2
replies
216
views
updated 1 day ago by
Ram
43k
•
written 1 day ago by
Assa Yeroslaviz
★
1.8k
1
vote
1
reply
150
views
1
vote
5
replies
263
views
updated 11 hours ago by
bk11
★
2.4k
•
written 1 day ago by
starswillfade
▴
10
0
votes
0
replies
91
views
0
votes
0
replies
87
views
updated 1 day ago by
Ram
43k
•
written 1 day ago by
carlopecoraro2
★
2.5k
0
votes
0
replies
80
views
1
vote
0
replies
101
views
0
votes
0
replies
86
views
1 day ago by
synat.keam
▴
100
0
votes
0
replies
117
views
0
votes
1
reply
417
views
updated 1 day ago by
ginellegrenier
•
0
•
written 4 months ago by
Clayton
•
0
3
votes
4
replies
247
views
1 day ago by
QX
•
0
2
votes
1
reply
170
views
updated 1 day ago by
Adrian Altenhoff
★
1.1k
•
written 2 days ago by
hemantcnaik
•
0
0
votes
0
replies
99
views
2
votes
4
replies
249
views
updated 1 day ago by
Ram
43k
•
written 1 day ago by
ashaneev07
▴
20
2
votes
3
replies
213
views
updated 1 day ago by
Pierre Lindenbaum
161k
•
written 1 day ago by
analyst
▴
30
0
votes
1
reply
151
views
updated 1 day ago by
b.contreras.moreira
▴
170
•
written 1 day ago by
Broccoli
•
0
0
votes
3
replies
212
views
0
votes
1
reply
182
views
2
votes
4
replies
2.4k
views
updated 1 day ago by
ZhangYuanfeng
•
0
•
written 2.4 years ago by
Frazier Baker
•
0
1
vote
2
replies
236
views
2
votes
3
replies
276
views
updated 6 hours ago by
Ram
43k
•
written 1 day ago by
Ming Tommy Tang
★
3.9k
0
votes
4
replies
2.7k
views
updated 2 days ago by
evawillms183
•
0
•
written 8.3 years ago by
andrepleao
•
0
0
votes
0
replies
121
views
Recent Votes
Recent Locations •
All
Australia, 13 minutes ago
Chile, 14 minutes ago
United States, 47 minutes ago
Perth, Australia, 55 minutes ago
United States, 58 minutes ago
United States, 1 hour ago
United States, 1 hour ago
Recent Awards •
All
Scholar to
Alex Reynolds
35k
Popular Question to
chaco001
▴
40
Commentator to
GenoMax
141k
Popular Question to
rheab1230
▴
140
Popular Question to
BioinfGuru
★
1.7k
Popular Question to
vinayjrao
▴
250
Recent Replies
Answer: Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
by
Gordon Smyth
★
7.0k
The comparison you've done seems exactly right to test whether treatment 2 modifies or enhances the effect of treatment 1.
Have you exam…
Answer: How to use limma to find differentially expressed genes in response to a continu
by
Gordon Smyth
★
7.0k
There's no need for form a contrast because the score variable is already in the model. A continuous variable is its own contrast. Just run…
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
▴
10
Oh wow, bedops closest-features, how did I overlook that!! I didn't know about it; thank you! Your awk script is beautiful. This worked per…
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
▴
10
Thank you Pierre! I'll try this out with my full data set.
Answer: DNA methylation preprocessing
by
cao510927
▴
30
I happend to see one paper doing the similar thing, share it with you guys, "A systematic evaluation of normalization methods and probe rep…
Answer: Create a new bed file with all pairwise combinations between two other bed files
by
Alex Reynolds
35k
I think Pierre's answer might be correct for your test input, but it doesn't account for the start position of the reference element and so…
Comment: Highest variable features in single cell data
by
bk11
★
2.4k
You need to be clear about how `Seurat` defines highly variable genes here. Highly variable genes are the genes that have very high express…
Comment: Heatmap and rna-seq
by
GenoMax
141k
Please include a link when you are recommending a tool. There can be programs with similar names.
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
by
Ram
43k
Simple:
```r
data <- lapply(files, read_tsv)
data <- Reduce(merge, data) # or Reduce(full_join, data)
```
<a href="" title="Text added bec…
Answer: Source other conda environments in a nextflow pipeline when nextflow itself is i
by
ATpoint
82k
You can make each process use a dedicated environment, see https://www.nextflow.io/docs/latest/conda.html#use-existing-conda-environments
…
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
by
BioinfGuru
★
1.7k
Hi,
Just thought I'd share this code snippet here for when each file contains multiple samples. I tried using lapply (as suggested by Ram)…
Comment: Low mapping rate with Salmon
by
i.sudbery
19k
Take your STAR alignment and sum all the counts for each gene. You can either do this by providing an annotation to STAR, or by running fea…
Comment: How to convert plink files to Hapmap Format
by
bk11
★
2.4k
If you run your data with plink 2.0, you will have ERRCODE column in your result file showing the reason behind "NA" p-value.
https://www.b…
Comment: genome assembly records not present in assembly_summary.txt
by
sapuizait
▴
10
jesus its in the Genbank file and I was looking at the refseq! I m such a moron - thanks for pointing it out -sorry about that :(
Traffic: 1762 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