19
votes
11
replies
14k
views
10 follow
10
votes
6
replies
9.8k
views
6 follow
updated 16 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
807
views
3
votes
6
replies
427
views
7 follow
updated 5 hours ago by
GenoMax
141k
•
written 3 days ago by
qudrat.nii
▴
10
4
votes
8
replies
364
views
2
votes
3
replies
320
views
updated 12 hours ago by
dsull
★
5.8k
•
written 17 days ago by
javanokendo
▴
60
0
votes
7
replies
301
views
2
votes
5
replies
282
views
2
votes
3
replies
274
views
updated 6 hours ago by
Ram
43k
•
written 1 day ago by
Ming Tommy Tang
★
3.9k
1
vote
5
replies
260
views
updated 10 hours ago by
bk11
★
2.4k
•
written 1 day ago by
starswillfade
▴
10
1
vote
2
replies
235
views
0
votes
3
replies
211
views
2
votes
2
replies
189
views
3
votes
3
replies
167
views
0
votes
2
replies
165
views
updated 5 hours ago by
Ram
43k
•
written 1 day ago by
The_PyPanda
▴
10
0
votes
1
reply
96
views
3
votes
0
replies
95
views
updated 4 hours ago by
Ram
43k
•
written 15 hours ago by
Claire Watson
▴
60
1
vote
1
reply
94
views
0
votes
0
replies
94
views
16 hours ago by
HarperReed
•
0
0
votes
1
reply
64
views
updated 3 hours ago by
Gordon Smyth
★
7.0k
•
written 4 hours ago by
pairedttest
▴
10
0
votes
0
replies
68
views
0
votes
0
replies
67
views
1
vote
0
replies
66
views
0
votes
0
replies
64
views
21 hours ago by
turcoa1
•
0
0
votes
0
replies
60
views
0
votes
0
replies
53
views
0
votes
0
replies
51
views
0
votes
0
replies
48
views
0
votes
0
replies
18
views
Recent Votes
Recent Locations •
All
Australia, 2 minutes ago
United States, 17 minutes ago
Perth, Australia, 25 minutes ago
United States, 28 minutes ago
United States, 32 minutes ago
United States, 36 minutes ago
Russia, 40 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: 1790 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