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This issue contains monthly updates to an automatically ranked list of PubMed papers as candidates for curation in the Bioregistry. Papers may be relevant in at least three ways:
(1) as a new prefix…
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I'm currently looking at the differences in the read alignments produced by vg and bwa. As the CIGAR strings don’t discriminate between matches and mismatches, I’ve written a Python tool which takes a…
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**1. What were you trying to do?**
Mapping Illumina WGS data to a cactus-minigraph pangenome.
In case it is relevant, the pangenome was constructed with 5 marsupial genomes, which have a few lon…
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Hi, I try to use get_blunted(pre-compile) on graphs which are compacted de Bruijn graph from Bifrost. My system is centos7 with gcc 9.4.
I test all the graphs which construct with 2 or 10 or 100 …
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Hii,
I installed HLA-LA through conda. I have downloaded graph and indexed, And while running the HLA-LA.pl I am getting below error
Have found no compatible reference specifications in /home/admi…
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It's not very clear to me how exactly VG or Giraffe carries out SV calling (if it truly does). The tutorials mention how we can do genotyping using existing SV calls, but I was wondering if VG or Gira…
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## ❓ Questions and Help
Hi,
I wonder if it's possible to train the SGDet Model with custom class labels (subset of the original 150 labels) only to improve model performance just on this set of clas…
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Here is a strange case of a missing gnomAD variant, 17-41228120-T-C. It appears in the gnomAD browser (https://gnomad.broadinstitute.org/variant/17-41228120-T-C?dataset=gnomad_r2_1_non_cancer), but n…
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Hi
Two features which I think would be really useful in sequenceTubeMap are:
1. On hover over a node or path more information is displayed i.e. all paths passing through the node and the sequenc…
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Hi
I have a whole chromosome graph from a pangenome alignment which includes paths along different genomes (20). I've embedded genes/exon/CDS into the graph based on a single path (the known and we…