johnsonz
johnsonz
By now, I can't apply NANOME for my species, right ? Because we don't have GPU server. What is the time consuming for CPU macheine. Thank you for your great...
Thank you, after reading paper [DNA methylation-calling tools for Oxford Nanopore sequencing: a survey and human epigenome-wide evaluation](https://genomebiology.biomedcentral.com/articles/10.1186/s13059-021-02510-z), if i have no availability in GPU server, maybe I can use...
If my basecalling was done, how can i skip this step and provide fastq for the enhance5 pipline ?
Thank you so much, I set `runBasecall` to false, it does not surpport indeed.
> Thanks a lot. I will try !!!
> Hi, I added the basecalled input for NANOME, please check https://github.com/TheJacksonLaboratory/nanome/blob/master/docs/SpecificUsage.md. Let me know if you have any issues. > > Best If my bascalled input has sevaral run,...
The tutorial you sent me seems like report.html, but it didn't show me how to retrieve the genes belonging to gains/duplications/losses for a specific species. I can find the code...
After exploring the pyHam, I found following code would help me, but I can't still get duplicated genes and lost genes ``` from pyham import Ham # 加载物种树和 OrthoXML 文件...
OK， I see. When a gene is not extant in the species, I can access it with `[descendant_gene.prot_id for descendant_gene in hogi.get_all_descendant_genes()]`. `vertical_.get_xx()` could only obtain the events number rather...
By the way, what's the difference between this methodology and CAFE5 when talking about Expansion & Contraction?