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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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The string optional field (type tag `Z`) is defined to conform to the regex `[ !-~]+`. However, in the SAM specs, it should conform to `[ !-~]*`. I.e. an empty string is allowed in SAM files but not i…
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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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### Your name
Lixu Jin
### Your affiliation
University of Montana
### Provide a clear and concise overview of the new feature requested.
Current HEMCO treats injection height in the sam…
jinlx updated
2 weeks ago
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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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Any plans to output your actual contigs in GFA?
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**Is your feature request related to a problem? Please describe.**
Currently, phables takes assembly graph files only in `gfa` format.
**Describe the solution you'd like**
Add a converting step i…
Vini2 updated
4 months ago
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As suggested by @heuermh during the BOSC 2021 CoFest - thank you!
- rGFA https://github.com/lh3/gfatools/blob/master/doc/rGFA.md#the-reference-gfa-rgfa-format
- GFA 1.0 http://gfa-spec.github.io/G…
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Hi
I am new to graph analysis and was sent here by Erik Garrison (https://github.com/GFA-spec/GFA-spec/issues/123)
Could someone guide me on which odgi command(s) to use to achieve my goal of ge…