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Hello developer,
I want to use vg to build a fungal pangenome graph. I have total of 148 isolate genome sequences.
The first I called the variants using GATK-pipeline.
Then I used these variants to…
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Hello everyone! Here is a full list of things that still need to be documented in anvi’o as of 11/10/2020.
Feel free to take over any one of these tasks or send me things to add to the list if I m…
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I tried to use:
```
ssds staging upload \
--deployment default \
--submission-id 809dd888-fe56-4535-8cc8-1121f379129c \
--name WUSTL_OTHER_HiFi_w_SUBREADS \
s3://human-pangenomic…
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I am currently trying to use your software on a directory with 28 genbank files that I have. However, when I am simply running the BDBH clustering algorithm like this:
```
./get_homologues.pl -d /…
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Please look into implementing KOFAMKOALA HMM's for gene annotation in anvi'o (https://www.genome.jp/tools/kofamkoala/). This would enable KEGG KO numbers in anvi'o with minimal workarounds.
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Hello,
I am using anvio v5.2, and when I ran `anvi-self-test --suite mini` and `anvi-self-test --suite pangenomics`, there were no errors, as far as I can tell. I am trying to follow the anvio pan…
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While syncing [nanopore data from S3](https://s3-us-west-2.amazonaws.com/human-pangenomics/index.html?prefix=submissions/e4a08a8d-4b3f-4211-b473-bb9270891037--UCSC_HPRC_nanopore/) SSDS exited out twic…
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Hi,
I was trying to download the 10X fastq files from the Amazon repository. Most worked fine e.g. for HG01243 at
`https://s3-us-west-2.amazonaws.com/human-pangenomics/HG01243/10X/H_IJ-HG01243-H…
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hi,
thank you for this amazing tool. what is the minimum overlap 2 sequences can have, so that minigraph will construct a node shared by the 2 underlying genomes?
i am asking bc/ when i construct a …
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Hi ,
I am downloading data of HG002 and NA12878 from [here](https://obj.umiacs.umd.edu/marbl_publications/merqury/index.html) but the HG002.k21.meryl.tar and NA12878.k21.meryl.tar links failed befo…