updated 11 months ago by
Ram
43k
•
written 5.4 years ago by
dashabalashova
▴
50
5
votes
0
replies
1.8k
views
5
votes
2
replies
1.5k
views
News:
Google Dataset Search
updated 11 months ago by
Ram
43k
•
written 5.6 years ago by
Pierre Lindenbaum
161k
5
votes
0
replies
993
views
4
votes
1
reply
1.8k
views
updated 11 months ago by
Ram
43k
•
written 6.3 years ago by
ksenya1.618
▴
40
4
votes
0
replies
1.2k
views
4
votes
2
replies
2.9k
views
5 months ago by
Ming Tommy Tang
★
3.9k
4
votes
2
replies
1.3k
views
4
votes
4
replies
1.9k
views
updated 11 months ago by
Ram
43k
•
written 6.0 years ago by
bioinformatics
▴
20
4
votes
0
replies
200
views
3 months ago by
David Langenberger
11k
4
votes
0
replies
1.0k
views
updated 11 months ago by
Ram
43k
•
written 5.7 years ago by
yves.sucaet
▴
40
4
votes
3
replies
1.0k
views
8 months ago by
PeterC_NCBI
▴
410
4
votes
2
replies
595
views
7 months ago by
PeterC_NCBI
▴
410
4
votes
3
replies
3.3k
views
News:
CAFE v4.0 available
updated 11 months ago by
Ram
43k
•
written 7.1 years ago by
Ben Fulton
▴
150
4
votes
3
replies
3.2k
views
4
votes
0
replies
721
views
updated 10 months ago by
Ram
43k
•
written 4.3 years ago by
Federico Giorgi
▴
730
4
votes
1
reply
1.2k
views
updated 10 months ago by
Ram
43k
•
written 4.4 years ago by
carlopecoraro2
★
2.5k
4
votes
0
replies
1.1k
views
updated 11 months ago by
Ram
43k
•
written 5.6 years ago by
carlopecoraro2
★
2.5k
4
votes
0
replies
1.9k
views
updated 11 months ago by
Ram
43k
•
written 6.1 years ago by
elia.brodsky
▴
340
4
votes
0
replies
1.4k
views
News:
ONLINE course - Metagenomics, metatranscriptomics, and multi'omics for microbial community studies
updated 10 months ago by
Ram
43k
•
written 4.1 years ago by
carlopecoraro2
★
2.5k
4
votes
1
reply
1.8k
views
updated 11 months ago by
Ram
43k
•
written 5.5 years ago by
carlopecoraro2
★
2.5k
4
votes
0
replies
4.0k
views
updated 11 months ago by
Ram
43k
•
written 7.1 years ago by
Khader Shameer
18k
4
votes
0
replies
1.5k
views
4
votes
0
replies
645
views
3
votes
1
reply
1.4k
views
updated 11 months ago by
Ram
43k
•
written 6.9 years ago by
Istvan Albert
100k
3
votes
1
reply
1.2k
views
updated 10 months ago by
Ram
43k
•
written 4.6 years ago by
Elisabeth Gasteiger
★
2.4k
3
votes
3
replies
1.2k
views
3
votes
0
replies
810
views
updated 10 months ago by
Ram
43k
•
written 4.4 years ago by
carlopecoraro2
★
2.5k
3
votes
0
replies
1.9k
views
News:
Deep learning in GATK4
3
votes
0
replies
1.1k
views
updated 11 months ago by
Ram
43k
•
written 6.9 years ago by
genecats.ucsc
▴
580
3
votes
2
replies
1.3k
views
updated 11 months ago by
Ram
43k
•
written 6.5 years ago by
Sean Davis
26k
3
votes
0
replies
710
views
3
votes
0
replies
785
views
updated 10 months ago by
Ram
43k
•
written 4.5 years ago by
David Langenberger
11k
3
votes
2
replies
739
views
8 months ago by
PeterC_NCBI
▴
410
3
votes
0
replies
118
views
updated 3 days ago by
Ram
43k
•
written 3 days ago by
carlopecoraro2
★
2.5k
3
votes
1
reply
1.5k
views
updated 11 months ago by
Ram
43k
•
written 7.1 years ago by
Sean Davis
26k
3
votes
0
replies
1.9k
views
updated 11 months ago by
Ram
43k
•
written 6.8 years ago by
Pine Biotech
▴
70
3
votes
0
replies
1.8k
views
3
votes
0
replies
102
views
updated 9 hours ago by
Ram
43k
•
written 19 hours ago by
Claire Watson
▴
60
3
votes
2
replies
687
views
3
votes
1
reply
6.8k
views
3
votes
5
replies
1.3k
views
updated 7 months ago by
alejandrogzi
▴
120
•
written 17 months ago by
dlaehnemann
▴
30
3
votes
0
replies
1.3k
views
News:
Nextflow Training Course
updated 10 months ago by
Ram
43k
•
written 4.6 years ago by
carlopecoraro2
★
2.5k
3
votes
2
replies
1.0k
views
3
votes
1
reply
1.4k
views
3
votes
0
replies
1.0k
views
3
votes
1
reply
842
views
updated 11 months ago by
Ram
43k
•
written 4.9 years ago by
stephens_sarah
▴
150
3
votes
2
replies
573
views
3
votes
0
replies
1.3k
views
3
votes
0
replies
547
views
News:
gnomAD v4 released
5 months ago by
Pierre Lindenbaum
161k
3
votes
0
replies
1.4k
views
Recent Votes
Recent Locations •
All
UCLA, 1 minute ago
Iran, 3 minutes ago
USA, 4 minutes ago
India, 6 minutes ago
South Korea, 10 minutes ago
Indonesia, 15 minutes ago
USA, 19 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
Comment: Heatmap and rna-seq
by
dsull
★
5.8k
https://maayanlab.cloud/clustergrammer/
It's a web-based tool (can also be a python jupyter widget) that I find useful for exploring a pat…
Answer: Limma Analysis Agilent Microarray Data (GPL1708)
by
Gordon Smyth
★
7.0k
There is an Agilent array case study in the limma User's Guide, which you might find helpful and somewhat simpler.
I don't recommend col…
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…
Traffic: 1635 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