leone93

merging different SV type?

2

**Version** : Truvari v4.2.2-dev 1cd03b2f4e8afdb3431595fa351501b36db3cfd8 **Describe the bug** : I'm trying to use Truvari merging to merge a file containing sv calling coming from 4 different callers. Actually I did...

How to visualize a gbz file

2

Sorry guys, I'm trying to visualize the output of a my cactus pangenome analysis using sequenceTubeMap but it is not straightforward to do it. I would like to visualize the...

Hy Fritz, I just found his bug trying to merge the SV coming from 5 different callers (pbsv,svim,sniffles,cutesv,svim-asm) for the same sample. This are only two example (just a part...

<INS> sequence missing in ALT field and represented as C<INS>, T<INS>, A<INS>, G<INS>

3

As the title says. Running sniffles 2.4 with this setting on my sample: ``` sniffles -t "$thr" --minsupport 3 --max-del-seq-len 1000000 --reference "$REF.fasta" --input "$ALIGN_DIR/$i/$i.sorted.bam" \ --output-rnames --sample-id "$i" --vcf...

Giraffe stuck forever on some hifi reads on specific pangenomes

9

**1. What were you trying to do?** Mapping some hifi reads sample on different pangenomes made with cactus. **2. What did you want to happen?** Going to have the proper...