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LChart
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camillab.
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Recent Replies
Comment: PTM-aware protein folding / docking
by
LChart
2.2k
A number of the docked structures have been solved; so it should be possible to incorporate those datapoints into the OpenFold training dat…
Answer: how can we improve genome assembly levels ? from contig to complete using bioinf
by
colindaven
4.6k
There are many, many roads to rome in this case. Please start by reading some of the thousands of research papers on this topic. I recommen…
Comment: Diffbind dba.count doesn't give FRiP score
by
gyspace
•
0
Thank you! I tried the command and dba.show() returned NULL. So how can I send my sample data?
Comment: Difference between sratools and sratoolkit
by
GenoMax
127k
SRATools = SRATool kit + SDK
For normal end users it would be the same thing.
Answer: How to run prepDE.py3?
by
Barry Digby
★
1.1k
The shebang in `prepDE.py3` looks for the first version of python3 installed in your path (`#!/usr/bin/env python3`) so if you have python3…
Comment: DiffBind missing peaks and FRiP
by
Rory Stark
★
1.7k
See [https://www.biostars.org/p/9559154/#9559220][1]
[1]: https://www.biostars.org/p/9559154/#9559220
Comment: Problem to convert genotypes to plink format from bcftools
by
Manuel Ramón
▴
10
Hello. Could you please share the code you used to filter by a GP>0.85? I am trying to do that with bcftools -selGT but I am having problem…
Comment: Diffbind dba.count doesn't give FRiP score
by
Rory Stark
★
1.7k
I can't reproduce this in the current version.
One possibility is that all of the FRiP values are equal to 1, meaning all of your reads ov…
Comment: DiffBind missing peaks and FRiP
by
Rory Stark
★
1.7k
This is a clever way to get the reads in peak numbers, and a better workaround than my suggestion using an internal function!
Yes, the `li…
Comment: SKAT iniciation
by
barslmn
★
1.4k
Besides the sources in their [README][1], you can check out the papers which uses the tool with [PubMed][2].
[1]: https://github.com/le…
Answer: Snakemake workflow for trimmomatic
by
Shred
★
1.1k
The provided error is very concise:
> Please specify concrete files or a rule without wildcards at the command line, or have a rule with…
Comment: extract gene coordinates and TSS from gene list
by
Chironex
▴
40
Thank you, this is perfect!!
Comment: How to get subset of a Seurat object based on metadata?
by
fracarb8
▴
940
You should check the consistency of both your seurat object and the meta.data table. I tried to add some identities formatted like yours to…
Comment: ORA analysis (over-representation analysis) : different package different padjus
by
camillab.
▴
130
Thank you! the universe and the genes are, I just used different names because the scripts were written in different times! However I re-ru…
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