19
votes
11
replies
14k
views
10 follow
10
votes
6
replies
9.8k
views
6 follow
updated 13 hours ago by
Antonio R. Franco
★
5.1k
•
written 6.0 years ago by
williamsbrian5064
▴
510
2
votes
6
replies
1.8k
views
7 follow
8
votes
16
replies
791
views
0
votes
11
replies
482
views
0
votes
6
replies
407
views
7 follow
updated 2 hours ago by
GenoMax
141k
•
written 3 days ago by
qudrat.nii
▴
10
4
votes
2
replies
369
views
updated 22 hours ago by
shalespringer
•
0
•
written 11 weeks ago by
Phenylananin
▴
20
2
votes
3
replies
319
views
updated 9 hours ago by
dsull
★
5.8k
•
written 17 days ago by
javanokendo
▴
60
4
votes
8
replies
316
views
0
votes
7
replies
293
views
2
votes
5
replies
279
views
2
votes
3
replies
255
views
updated 3 hours ago by
Ram
43k
•
written 1 day ago by
Ming Tommy Tang
★
3.9k
1
vote
5
replies
251
views
updated 7 hours ago by
bk11
★
2.4k
•
written 1 day ago by
starswillfade
▴
10
1
vote
2
replies
227
views
0
votes
3
replies
194
views
2
votes
2
replies
185
views
0
votes
2
replies
160
views
updated 1 hour ago by
Ram
43k
•
written 1 day ago by
The_PyPanda
▴
10
3
votes
3
replies
158
views
0
votes
1
reply
92
views
3
votes
0
replies
91
views
updated 1 hour ago by
Ram
43k
•
written 12 hours ago by
Claire Watson
▴
60
0
votes
1
reply
84
views
0
votes
0
replies
84
views
13 hours ago by
HarperReed
•
0
0
votes
0
replies
64
views
0
votes
0
replies
63
views
1
vote
0
replies
62
views
0
votes
0
replies
60
views
18 hours ago by
turcoa1
•
0
0
votes
0
replies
48
views
0
votes
0
replies
47
views
0
votes
0
replies
40
views
0
votes
1
reply
27
views
updated just now by
Gordon Smyth
★
7.0k
•
written 1 hour ago by
pairedttest
▴
10
0
votes
0
replies
26
views
Recent Votes
Recent Locations •
All
Palau, just now
United States, just now
San Francisco, 2 minutes ago
United States, 3 minutes ago
United States, 5 minutes ago
United States, 6 minutes ago
Oviedo, 6 minutes 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: 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 :(
Comment: ScRNA data question
by
bk11
★
2.4k
I wonder how the `Vlnplots` will look if you normalize the data using `NormalizeData()` function in `Seurat`. The flat line in your plot ar…
Traffic: 2224 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