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I have a .gfa file with added P-lines, but once uploaded in BandageNG the path Length is considered '0'. I checked the input file and there are actually complete paths in the file for all the input as…
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Dear zeng:
I need to assemble a homozygous tetraploid and perform genotyping. I plan to use "work with hifisam".
haphic pipeline p_utg HiC.filtered.bam nchrs --gfa p_utg.gfa.
My commond:
cat YZ4.…
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Hi @ilyaminkin,
It's me again :). TwoPaCo has been working great, but I've run into a small issue regarding the GFA file. I was wondering if you could clear up my confusion. I build a cdBG usi…
rob-p updated
7 years ago
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@leoisl @mbhall88 could you paste here an example of the ML-path format that pandora uses, to describe a ML path with respect to the linearised prg?
Then I can implement it in gramtools.
Or, we …
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Look into using pillow to
- [ ] check that the output format is correct
- [ ] check that the file is consistent with the declared output
- [ ] generate both png and jpeg
- [ ] update the pyproje…
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I have two primary questions here...
1. What information does the 'x' type line contain and where is it documented?
2. What information does the SD tag, found in 'L' type lines contain? Example "S…
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@lh3, I'm curious to know , whether we can convert `GFA` to `rGFA`? . As per [rGFA](https://github.com/lh3/gfatools/blob/master/doc/rGFA.md) format, we need to maintain 3 additional information along…
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Any plans to output your actual contigs in GFA?
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Hi all, I generated a pangenome with Minigraph-Cactus with this command:
```
cactus-pangenome 3_MC_all/js-3_MC_all ./scripts/3_MC_all.seqfile \
--outName 3_MC_all \
--outDir 3_MC_all \
--refer…
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### Description of bug
binspreader threw an error while parsing assembly_graph_with_scaffolds.gfa. It looks like there are semicolons where the program was expecting tabs. I did not modify the assemb…