-
Hi @eblerjana,
I've been working with `PanGenie` more often since my last issue. I was keen on assessing the performance for the genome inference of HG002, so I benchmarked my `PnaGenie` outputs fo…
-
Hi there, is there some way to drill down and get a closer look at specific regions of a chromosome? For example, if I wanted to look more closely at chromsome 3: 1000-100000 would this be possible us…
-
hi vg team:
I have a pangenome graph,and use vg to call variants。command:
vg autoindex --workflow giraffe -r ref.fasta -v test.vcf -t 30 -p Ah -T ./tmp
vg giraffe -t 60 -Z Ah.giraffe.gbz -…
-
Hi all,
What's the easiest way for me to go from a existing multiple sequence alignment FASTA to a graph, for analysis in VG?
-
When running this command:
```bash
odgi untangle -i k_locus.og -r 'bGalGal1b#0#chrZ:11159192-11400491' -m 256 -P > test.bed
```
I receive the following error:
```
[odgi::untangle] warning: n…
-
Hi,
I'm trying to build a pangenome graph with 35 haplotypes (18 individuals), using the following commands:
```
module load singularity/3.8.5
source ~/cactus/cactus_env/bin/activate
cactus-p…
-
Hi team,
thank you for developing this amazing tool!
I have a couple of questions regarding odgi graphs manipulation through the Python API.
I created an odgi graph from a gfa containing > 1000 ha…
-
Hi,
I had a few questions about the consensus graph generation. I generated this with `-C 100`
![image](https://user-images.githubusercontent.com/29678761/117970483-0131bd00-b329-11eb-9f71-6ac3169…
-
Dear pggb team,
I wanted to ask your thoughts on a problem I am facing currently.
Suppose I have sequences for a given locus (of some ~100s kb) for several taxa of the same genera. The genera i…
-
## Short description of the problem
Attempting to generate DAG diagrams with `anvi-run-workflow --save-workflow-graph` results in an error due to pulp v2.8.0 which installs with anvi'o v8.
## an…