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Hi,
First of all, thanks for your benchmark.
I am interested in the raw outputs (predictions) of the methods, especially for the Gene Finding task.
As I prefer to avoid retraining the CNNs, is th…
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Here is also a short introduction for gene finding！
http://www.cs.us.es/~fran/students/julian/gene_finding/gene_finding.html
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Hello,
I am using anaconda3 on a Windows10 machine with Spyder interface to run Stream. When I try to use my data to identify Variable genes, I get the following warning and then no variable genes …
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Hey Sara !
We met two weeks ago at the EuroBioC 2024 and talked about your poster. I just read the paper on CENTER and I am still very interested in using it as I think it could be exactly what I ne…
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After running the function runGenePeakcorr I get this error message:
Error in (function (classes, fdef, mtable) :
unable to find an inherited method for function ‘letterFrequency’ for signature…
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### Is there an existing issue for this?
- [X] I have searched the existing issues
### Have you loaded the SQANTI3.env conda environment?
- [X] I have loaded the SQANTI3.env conda environment
### …
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[config_mApple2_gRNA_100919.txt](https://github.com/zhangchonglab/CRISPRi-functional-genomics-in-prokaryotes/files/3714579/config_mApple2_gRNA_100919.txt)
first of all, nice tool!. I have been tryi…
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Hey there! I was hoping to get some clarification regarding some issues I've come across...
**ISSUE 1:**
Ran RATT with the following inputs:
- transfer type - Strain
- Isolate - SEA08151 ([.fa…
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Hi,
I ran orthofinder with 5 species. Next, I would like to pick only 3 of them and find out:
1. How many clusters and genes are unique to species 1 and species 2?
2. How many clusters and genes…
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Dear authors,
I attempted to filter genes based on variance using the following code:
> adata = sc.read_h5ad(expr_path)
> adata.var_names_make_unique()
> sc.pp.filter_cells(adata, …