SVarp

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how to interprete the results?

1

Hello, I would like to use the files available at the following link: https://ftp.1000genomes.ebi.ac.uk/vol1/ftp/data_collections/1KG_ONT_VIENNA/release/v1.0/final-vcf/final-vcf.phased.vcf.gz. However, I am having difficulty understanding the notation used for the variant descriptions, specifically: chr1-21837-COMPLEX->s65863s1192-104. Could...

wnddl111

Segmentation fault (core dumped)

3

Hi, I am trying to use SVarp to detect SV from pangenome graph using this comman line `svarp -a sample.gaf -g ref_graph.gfa -f sample.fq.gz -i sample`. `ref_graph.gfa` was generated by...

LuyaoRen

some questions about `svtigs`

4

Hi @asylvz , `svtigs` is a cool representation, but I still have some questions about it: how to get the breakpoints or `call` variants? My process is aligning `svtigs.fa` to...

wjwei-handsome

some questions in the paper.

2

Hi, I'm looking at your paper, but there are some questions I don't understand. In the `step 5`, Svtig2 is aligned to the `s6 and s7` nodes, but why is...

tanger-code

How are you @asylvz ? Is it possible to provide an example including all the necessary input files in order to run through the test SVarp? Thank you for your...

JiaB-He