-
Hello,
I am trying to understand MAF format from `smooth.maf` file. I have 18 genomes and created graphs for each of the chromosomes. Here are some example lines from smooth.maf output file for on…
-
Hi, @ekg
I try the different combinataion of parameters follow your suggestions and by this issue (#148) for chromosome 1 of a tetraploid genome (four haplotype).
> Our major parameters are -s -…
baozg updated
2 years ago
-
Hi,
I'm getting this error while trying to visualize the **hprc_pggb_Y1** graph in `.gfa.gz` format:
> warning [libhandlegraph]: Serialized object does not appear to match deserialzation type.
…
-
When generate the pangenome of HIV-2 species, I got a 421,130bp pangenome which is larger than all size of input genomes.
How to understand this situation?
`
SuperPang.py --fasta 11709/genome/*.fa…
-
This isn't an issue per se, but rather a theoretical question. Could metagraph be used for a non-read based pangenome analysis? II understand it would function beautifully for a read-based analysis, b…
-
**1. What were you trying to do?**
Map RNA paired-end reads to a splicepangenome graph (original _.gfa_ from `pggb`). Index construction (gcsa and distance) worked without any errors.
I used :
…
-
Dear developer:
Here we are trying "The Minigraph-Cactus Pangenome Pipeline", but we found it is hard to work,could you help me to solve the problem?
Thank you!
docker run -v 22.Minigraph_cactu…
-
I'm having an issue with smoothxg. wfmash and seqwish run no problem, but I get an unexpected signal 6 termination subsequently.
Any ideas?
```
[odgi::unchop] unchopped 542 nodes into 269 new…
-
I am new to programming, and I have successfully installed Roary in an Ubuntu subsytem in Windows 10. I have carried the Roary analysis on Galaxy platform. But I would like to generate the pangenome …
-
Dear Sir/Madam,
Is there any information on how to set up the memory and threads of pggb?
For example, there are seven genomic sequences, each with 100 M bp. For a fast analysis, there is a bala…