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The feature released in 497cf6c13e23a7802eee5c3a96d07b855bff3119 in response to #12 allows for the export of the best _n_ haplogroups.
When running with microarray data using the `--chip` flag, of…
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When trying to annotate with Haplogrep2, it complains because INFO contains whitespace from gnomAD. Source gnomAD VCF already contains this, so I need to fix it at the Dockerfile.
Exception is as …
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Some of my samples show a quality of "∞%".
What does it mean?
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there was a pretty significant change made to the code in the past 2 months which got haplocheck working properly, not sure what that was but thank you for that.
I wanted to drop some notes here b…
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Used data:
https://github.com/apeltzer/mitoDB-data/blob/master/data/Modern/1000GP3/1000GP3.csv
https://github.com/apeltzer/mitoDB-data/blob/master/data/Modern/1000GP3/1000GP3.fasta
Clicked on An…
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Hello,
I am now in an environment where my only option is to run MitoHPC in a container. When I do that, following your instructions, it all works fine until haplogrep, when it fails on:
'Loading …
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Hi, recently I downloaded v3.2.1 for linux a and followed the simple instruction given in [docs/installation.md](../tree/main/docs/installation.md).
However when executing haplogrep3 (without argum…
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bcftools norm -m- -o Mutect2_split.vcf -O z
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Hi all,
I just tried the `test` profile for /mtdna-server-2
```
/nextflow run genepi/mtdna-server-2 -r v2.1.9 -profile test,singularity -resume
```
but I got an error for MTDNA_SERVER_2…
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if I am running haplogrep3 within a container in an environment with tight security protocols, and I am getting frequent connection time outs is there any way to install the phylogenetic treees locall…