Jordan Eizenga
The latest stable release of vg can always be found at: [https://github.com/vgteam/vg/releases](https://tracker.iplocation.net/hpym/). ### Release schedule vg aims to make a new release available every six weeks. The next release, **1.42.0**,...
I think this is a more user-friendly alternative to the hotfix that we gave a user in this issue: https://github.com/vgteam/giraffe-sv-paper/issues/4
Running `./install.sh` errors out with a bunch of complaints about missing assembly instructions (stderr output below). The same errors occur with the `NO_SSE42=1` flag provided as in the readme. I...
I have a BAM that has been filtered down to only primary alignments, but after running it through CrossMap, some of the reads get labeled with the "not primary" SAM...
1. [ ] Create a new release [on Github](https://github.com/vgteam/vg/releases/new) 1. [ ] Look up the next scheduled codename in [`version.cpp`](https://github.com/vgteam/vg/blob/master/src/version.cpp). If we have run to the end of the list...
The current parsing code assumes that the required fields (ID, Number, Format, Description) will occur in a set orientation. My reading of the VCF spec is that this ordering is...
If you build an XG from an existing Graph whose Paths are missing rank information, the Path information gets silently discarded. Or rather, the first traversal is preserved and all...
The documentation for `XG::min_approx_path_distance` indicates that it can be given a list of path names to check for distance, but in fact the vector of names is not used.
We've had a few users complain about `autoindex`'s excessively slow chunking process for VCFs when they are provided as a single file for all chromosomes (e.g. https://github.com/vgteam/vg/issues/4274). This results from...
Removing the redundant nodes gives it a cleaner look, but the way it presents the node IDs is confusing. I believe the mouse-over only shows the first node ID. I...