Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : today
all time
today
this week
this month
this year
0 results • Page
1 of 1
Sort: Rank
Rank
Views
Votes
Replies
Topic contains no posts.
No posts found.
0 results • Page
1 of 1
Recent Votes
A: LogFC and LogCPM
Comment: Help with running egsea()
removeBatchEffect explained using base R linear models
Comment: Help with running egsea()
Why employ normalization methods, and how can they be utilized in DEG analysis?
Comment: Help with running egsea()
Comment: Question regarding WGCNA
Recent Locations •
All
United States,
just now
Bologna,
just now
Singapore,
2 minutes ago
United Kingdom,
3 minutes ago
ETH Zurich,
3 minutes ago
Belgium, Brussels,
5 minutes ago
Uruguay,
5 minutes ago
Recent Awards •
All
Popular Question
to
Papyrus
★ 2.9k
Popular Question
to
hkarakurt
▴ 180
Commentator
to
GenoMax
142k
Popular Question
to
anasjamshed
▴ 120
Teacher
to
Pierre Lindenbaum
161k
Popular Question
to
anikcropscience
▴ 230
Popular Question
to
Omics data mining
▴ 260
Recent Replies
Comment: UMI-Tools knee-method has great influence on the results of white list
by
i.sudbery
19k
I didn't mean to sound like I was taking it as a criticism, I genuinely meant that we never intended to be a foolproof whitelisting tool. T…
Comment: Help with running egsea()
by
Chris
▴ 270
Thanks 1769mkc! I also tried fgsea. The author of limma comment on this post that p value from fgsea is not truly significant as it is http…
Comment: trying to count a pattern in my fastq file using bbduk
by
Assa Yeroslaviz
★ 1.8k
yes it does. As far as I understand it, you can use `N` here. I took it from [this example][1] Brian posted a few years ago This is why…
Comment: UMI-Tools knee-method has great influence on the results of white list
by
Assa Yeroslaviz
★ 1.8k
thanks for the answer. I wasn't complaining about the tool (or the results for that matter). I'm just trying to understand why the differe…
Comment: Help with running egsea()
by
1769mkc
★ 1.2k
"c2 gene set from MSigDB." this i agree in that case https://bioconductor.org/packages/release/bioc/html/fgsea.html you can try this one wh…
Comment: UMI-Tools knee-method has great influence on the results of white list
by
i.sudbery
19k
If you can post the knee plot, that might be helpful. But I will add that the whitelist command in UMI-tools was primarily designed to be a…
Comment: Help with running egsea()
by
Chris
▴ 270
Thanks 1769mkc! I tried this tool. Gene expression of 2 groups is just slightly different (not hundred of differential express genes). The …
Comment: Help with running egsea()
by
1769mkc
★ 1.2k
https://metascape.org/ this is one of the ways to make life easier if you have the genes already from the differential list
Comment: RNA editing sites based on DNA seq and RNA seq
by
Ahiad Chen Zion
• 0
In those unaligned reads, I am looking for hyper-editing. But the alignment should be much higher
Comment: Bacterial plasmid analysis
by
GenoMax
142k
Once you have some of these basic issues sorted out you can create a `tools` post describing `pling`.
Comment: Bacterial plasmid analysis
by
Daria
▴ 30
Hi, you need to run it with `PYTHONPATH=<pling_path>` in front of the command (a bit clunky, I know -- will likely be fixed in the next ver…
Comment: trying to count a pattern in my fastq file using bbduk
by
GenoMax
142k
I don't think you can use N's in `literal=` since the match is literal as the option says. Depending where in the read this pattern is you …
Comment: Repeated testing/data mining in RNA Seq
by
ATpoint
82k
> As such, I am wondering what the protocol is here? My personal suggestion is to just do it and see what comes out. Multiple comparisons …
Comment: Applying the metacell2 algorithm using python
by
JACKY
▴ 140
I've followed this [vignette][1] [1]: https://tanaylab.github.io/metacells-vignettes/iterative.html Which is the only pipeline that d…
Comment: Bacterial plasmid analysis
by
GenoMax
142k
https://www.biostars.org/u/98332/ : This may be best posted as a new question since you are now running into a problem with tool usage.
Traffic: 2682 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6