Sun Wu

Hi! I recently encountered an issue with overcorrection during genome assembly. After reading manual_18022.pdf, I found that the problem might be in the edit module. Therefore, I am planning to...

@chhylp123 Dear Dr. Cheng: I have constructed primary contigs by hifiasm, with default parameters, with HiFi reads. The statistics of assembly are show in below fig. Although the assembly size...

How to deal with extremely high mapping rate?

3

I use hifiasm with HiFi reads to construct primary contigs, and scaffolding with 3ddna pipeline. Although I obtain a relatively complete genome, with 92.9% of busco and 95% of primary...

I use hifiasm with HiFi reads to construct primary contigs, and scaffolding with 3ddna pipeline. Although I obtain a relatively complete genome, with 92.9% of busco and 95% of primary...

Error with running SPAdes: == Error == exception caught: <class 'AttributeError'>

10

**First check** - [ ] I used the GitHub search to find a similar issue or discussion and didn't find it. - [ ] I searched [GetOrganelle.wiki](https://github.com/Kinggerm/GetOrganelle/wiki) context, especially the...

RuntimeError: maximum recursion depth exceeded

1

[orthofinder_20241204.txt](https://github.com/user-attachments/files/18140720/orthofinder_20241204.txt) Hi, I encountered a problem while running this cmd: ```sh for f in *faa ; do python ../tools/primary_transcript.py $f done conda activate orthofinder nohup orthofinder -f primary_transcripts/ -t 16...