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I get an error when running ppanggolin (v1.2.105) using fasta files:
```
2023-06-21 22:26:52 draw_spot.py:l565 INFO Ordering genes among regions, and drawing spots...
0%| …
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- [x] multiqc - https://anaconda.org/bioconda/multiqc - https://github.com/nf-core/modules/tree/master/modules/multiqc
- [x] wfmash - https://anaconda.org/bioconda/wfmash
- [x] seqwish - https://ana…
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Hi,
I would like to run odgi heaps on various subsets of samples in my graph, as opposed to running it for the full set of samples -- is this possible without having to generate new graphs altogeth…
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Hi,
I know GraphAligner is a nice tool for long read mapping, but given problems with speed or compatibility with other tools in the graph genomics world, I tried it for short Illumina reads (150bp…
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I believe that during graph construction, pggb produces edges that are not covered by any path. If this is in fact the case, then these additional edges can potentially cause false positives in subseq…
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Dear rnakato,
Thank you for the amazing program. I am trying to apply the alignment files generated with the bowtie2 program. The reference used here is Oryzasataiva (MSU-TIGR v7).
I used the bel…
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**1. What were you trying to do?**
Extract a subgraph from a larger graph, using this command:
```bash
vg find -p 'bGalGal1b#0#chrZ:11159196-11400464' -x pangenome.gbz > k_locus.gbz
```
**2. Wh…
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Hi,
One of the features I found useful with EDTA was the script for combining consensus repeat libraries across multi-sample datasets. Is there a way to combine Earl Grey results from assemblies of…
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Hello ppanggolin users,
I am trying to run a panrgp analysis on 40 bacterial genomes, however after the command :
ppanggolin panrgp --fasta fasta.input -o output_panrgp --cpu 12
everything…