-
Hi,
I am experiencing the following error with ppanggolin projection:
Exception: Reading the gbff file '/path/to/some/genomic.gbk' raised an error. Expected type is string, given type was ''
Step…
-
Hi.
Now I have the `.gbz` graph file, and I want to simulate the third-generations `long reads` data from a pangenome graph. Can VG simulate the third-generations long reads? Or if there is some m…
-
Hi, I ran pggb to build pangenomes for 10 bacterial genomes (Ecoli). The command is `pggb -i merged.fa.gz -o 10n95p -t 20 -p 95 -n 10 -S -m` and it can work well. But i have some confused with the par…
-
Hello,
Much appreciated for your excellent work.
I try to run your code in my project with pangenome command.
I met a error as following:
Starting ====== 2020-02-27 12:40:48 ======
Traceback…
-
I want to represent the presence/absence matrix of the pangenome with the newick tree using gheatmap. I want presence in black and absence in white:
```
pangenome
-
Hi,
Is it possible to visualize the pangenome graph of minigraph output using pgr-tk toolkit?
-
## Failed `sanitize_fasta_header` jobs with `sqlite3.OperationalError: disk I/O error` in Cactus Pangenome on WSL Ubuntu 20.04
### Issue Description
I'm encountering an issue with Cactus Pangenome…
-
Interest have been expressed about visualizing graphs from pggb into Panache ( cf nf-core/pangenome#197), but the steps to convert formats are currently unclear.
Some documentation highlighting how…
-
Hi,
I am trying to use PanGenie to genotype personalized minigraph-cactus graphs generated by `vg haplotypes`. In the [personalized pangenome paper](https://www.biorxiv.org/content/10.1101/2023.12.…
-
I want to generate a VCF file from haplotype-resolved assemblies using pangenome-graph-from-assemblies, recommended in document, but encounter error. Is it a format problem of config.json ? The pictur…