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I am running nextNEOpi on wgs data and I am running into an issue with NEOFuse, specifically with MHCFlurry. The sample229_dwn_MHCI_final.log gives me this:
Traceback (most recent call last):
Fi…
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Now that we've reconfigured and refactored the phasing pipeline to improve SV performance on 10Mbp, we probably need to make additional changes to improve scalability for whole chromosome/genome runs.…
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On the metric distribution plot, it would be beneficial to diaply the value of the median
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https://docs.rs/geo/latest/geo/algorithm/cross_track_distance/trait.CrossTrackDistance.html
One approach would be:
1. Deprecate `cross_track_distance` in favour of `cross_track_distance_haversin…
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Thanks for creating this tool. I'm running paired tumor-normal WGS samples. Using `msisensor2 scan` returns ~30 million sites when running with default settings. This seems excessive and `msisensor2 m…
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In the document `docs/miairr/introduction_miairr.rst`, there's a link to the Minimal Standards Working Group (`http://airr-community.org/working_groups/minimal_standards`). However, this page is curre…
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Hi,
I am trying to use PBSIM3 to simulate HiFi Revio reads from a simulated reference genome with some insertions of interest. I use the following command:
```
pbsim
--strategy wgs
--genom…
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@SamMcConnell
I need index files to work with WGS bam files. I tried to generate them but seems I can't write to your folder. Could you run the following commands for me? Thanks!
```
cd /projects/…
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Hi,
We are looking to optimize the polishing step for reconstructing a plant genome using PacBio HiFi reads (Q30). Specifically, we tested both NextPolish and NextPolish2, followed by a variant cal…
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Using a snippet from [the example](https://schemas.opengis.net/ogcapi/edr/1.1/openapi/examples/collection.json) collection metadata on schemas.opengis.net:
```json
"position": {
…