52 minutes ago by
Mwangana
•
0
0
votes
0
replies
13
views
0
votes
1
reply
140
views
0
votes
0
replies
115
views
843
votes
170
replies
182k
views
112 follow
updated 10 weeks ago by
Biostar
3.6k
•
written 8.6 years ago by
Istvan Albert
102k
0
votes
0
replies
114
views
0
votes
2
replies
415
views
0
votes
2
replies
435
views
0
votes
5
replies
319
views
0
votes
0
replies
122
views
0
votes
1
reply
164
views
updated 1 day ago by
GenoMax
152k
•
written 2 days ago by
AlienPumpkinPie
•
0
6
votes
8
replies
865
views
1
vote
3
replies
228
views
2 days ago by
boczniak767
▴
880
2
votes
4
replies
2.6k
views
updated 2 days ago by
cmdcolin
★
4.2k
•
written 4.1 years ago by
boczniak767
▴
880
0
votes
0
replies
137
views
1
vote
4
replies
1.1k
views
0
votes
1
reply
191
views
updated 2 days ago by
Pierre Lindenbaum
166k
•
written 2 days ago by
lintonf
•
0
1
vote
1
reply
189
views
updated 3 days ago by
Jouni Sirén
▴
680
•
written 3 days ago by
lushjia
•
0
2
votes
1
reply
189
views
4
votes
1
reply
238
views
1
vote
2
replies
302
views
0
votes
1
reply
178
views
0
votes
2
replies
306
views
0
votes
0
replies
150
views
3 days ago by
ecSeq Bioinformatics
▴
20
0
votes
1
reply
217
views
updated 3 days ago by
Arup Ghosh
3.3k
•
written 3 days ago by
py3296746920
•
0
3
votes
1
reply
398
views
2
votes
15
replies
871
views
3
votes
2
replies
276
views
updated 3 days ago by
jared.andrews07
★
19k
•
written 4 days ago by
louisflower1999
•
0
3
votes
3
replies
345
views
1
vote
2
replies
299
views
updated 4 days ago by
GenoMax
152k
•
written 4 days ago by
Shakunthala Natarajan
•
0
1
vote
5
replies
392
views
3 days ago by
QX
▴
70
0
votes
2
replies
347
views
0
votes
2
replies
337
views
0
votes
1
reply
316
views
updated 3 days ago by
antonioggsousa
3.4k
•
written 5 days ago by
Jamie
•
0
0
votes
0
replies
221
views
0
votes
0
replies
241
views
2
votes
6
replies
479
views
0
votes
0
replies
218
views
5 days ago by
reddyornah
•
0
3
votes
4
replies
419
views
5 days ago by
Bjorn
•
0
0
votes
0
replies
244
views
4
votes
3
replies
399
views
2
votes
4
replies
424
views
0
votes
3
replies
501
views
updated 5 days ago by
i.sudbery
21k
•
written 9 days ago by
jonas.andersson
▴
40
0
votes
0
replies
248
views
6 days ago by
Sumit Paliwal
▴
40
3
votes
8
replies
6.7k
views
7 follow
0
votes
1
reply
747
views
1
vote
0
replies
316
views
8 days ago by
slzr_
▴
10
2
votes
3
replies
522
views
0
votes
0
replies
996
views
0
votes
0
replies
367
views
2
votes
3
replies
520
views
updated 9 days ago by
Maximilian Haeussler
★
1.8k
•
written 10 days ago by
ijarne
▴
20
Recent Votes
Recent Locations •
All
Chile, just now
USA, 7 minutes ago
France, 23 minutes ago
Namibia, 28 minutes ago
Canada, 30 minutes ago
Machhagan, 35 minutes ago
France/Nantes/Institut du Thorax - INSERM UMR1087, 1 hour ago
Recent Awards •
All
Popular Question to
rohitsatyam102
▴
940
Popular Question to
ATpoint
88k
Popular Question to
LauferVA
4.8k
Popular Question to
txema.heredia
▴
250
Popular Question to
Whirlingdaf
▴
60
Popular Question to
Physalia-courses
★
2.6k
Popular Question to
bioinfo
▴
160
Recent Replies
Comment: lovis4u Confiduration
by
GenoMax
152k
Unless you are able to use "user defined window" with color (as noted in https://art-egorov.github.io/lovis4u/ExampleDrivenGuide/cmd_guide/…
Comment: WGBS Analysis with 1 control sample and 6 disease samples
by
ATpoint
88k
What is your analysis goal? Differential methylation? edgeR has a workflow (see its user guide) where 6 vs 1 would be supported. That is ob…
Comment: why bwa-mem only return one read with pair-read end
by
rfran010
★
1.6k
Is this true for bwa-mem?
I find generally this is not true, e.g. if I have 1 million paired reads with one alignment per read pair, I expe…
Comment: WGBS Analysis with 1 control sample and 6 disease samples
by
Shohel
•
0
For WGBS analysis with multiple samples you can solve it by one by one. Although you have only 7 samples. To analyze the WGBS file you can …
Comment: How to extract gene list from GEO dataset in R
by
Shohel
•
0
Hi I saw the GSE239903 dataset. It contains RNAseq data along with ATACseq data. To get the gene IDs you can follow the scRNA seq pipeline …
Answer: RNA seq strandedness (reverse-strand)
by
Shohel
•
0
Hi, you can use hisat2 for alignment then Sam tools and then featurecount for coun matrix...
Hisat2 code is
hisat2 -x genome_index -1 read…
Comment: Extract track data from "search by region" feature on ENCODE
by
GenoMax
152k
Examples of the API don't show any region based examples. Not saying that is not possible but it would be an obvious example that would hav…
Comment: Draw GO tree for some GO ids with coloring
by
boczniak767
▴
880
Thank you all for input. @jaredandrews07 - I have too many graphs to color them manually ;-).
It is not the first time when I find answer …
Answer: Weird p-value distribution on edgeR results
by
dariober
15k
> On the other hand, it is possible to get an p-value histogram like you show if there is a massive batch effect and the batch effect is ba…
Answer: Draw GO tree for some GO ids with coloring
by
jared.andrews07
★
19k
Frankly, I'd just get as close as possible and then re-color the significant terms in Illustrator or such.
[genescape](https://github.co…
Answer: Extract transcript fasta using gff
by
cmdcolin
★
4.2k
As long as this thread is revived, there is minigff now also https://github.com/lh3/minigff
For gffread, the documentation for some reason…
Answer: Draw GO tree for some GO ids with coloring
by
txema.heredia
▴
250
`clusterProfiler` has several tools to draw the results:
https://yulab-smu.top/biomedical-knowledge-mining-book/enrichplot.html
Even …
Comment: RNA seq strandedness (reverse-strand)
by
michael.ante
★
4.0k
You can use [IGV][1] to look at your alignment using your reference and its gene-annotation. You'll see how your reads orient themselves in…
Comment: Identifying gene outliers in a genome using composition analysis.
by
Shakunthala Natarajan
•
0
Thank you. I will check them out.
Comment: RNA seq strandedness (reverse-strand)
by
GenoMax
152k
Use a standard tool like `featureCounts` as noted here --> https://www.biostars.org/p/9612088/#9612095
Traffic: 1337 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