# \#vgp **URL:** https://help.galaxyproject.org/tag/vgp/363.md [Latest](https://help.galaxyproject.org/latest.md) · [Categories](https://help.galaxyproject.org/categories.md) · [Tags](https://help.galaxyproject.org/tags.md) --- ## [Unequal contig length of haplotype assemblies?](https://help.galaxyproject.org/t/unequal-contig-length-of-haplotype-assemblies/16379)
**Author:** [@nirjana\_dewan](https://help.galaxyproject.org/u/nirjana_dewan)\ **Replies:** 3\ **Last updated:** [October 17, 2025, 8:27pm UTC](https://help.galaxyproject.org/t/unequal-contig-length-of-haplotype-assemblies/16379 "2025-10-17T20:27:56Z")
Hello! I am currently trying to put together an avian reference genome using the Vertebrate Genome Project workflow on Galaxy. To provide some context, I have HiC and HiFi sequences from the same individual (female spec… --- ## [Assembly: species specific coverage questions? See VPG resources!](https://help.galaxyproject.org/t/assembly-species-specific-coverage-questions-see-vpg-resources/16268)
**Author:** [@Derek\_Wilkinson](https://help.galaxyproject.org/u/Derek_Wilkinson)\ **Replies:** 1\ **Last updated:** [September 23, 2025, 8:41pm UTC](https://help.galaxyproject.org/t/assembly-species-specific-coverage-questions-see-vpg-resources/16268 "2025-09-23T20:41:22Z")
I used Galaxy Europe server and tool: Raven De novo assembly of Oxford Nanopore Technologies data (Galaxy version 1.8.3+Galaxy0 on a concatenated fastq file of ONT long reads. We have sequenced the fungus, Osmozyma mogii… --- ## [VGP - Workflow 1: K-mer Profiling - Need 2 PacBio Hifi Files But I Only Have 1](https://help.galaxyproject.org/t/vgp-workflow-1-k-mer-profiling-need-2-pacbio-hifi-files-but-i-only-have-1/15280)
**Author:** [@adswann](https://help.galaxyproject.org/u/adswann)\ **Replies:** 3\ **Last updated:** [April 23, 2025, 4:44pm UTC](https://help.galaxyproject.org/t/vgp-workflow-1-k-mer-profiling-need-2-pacbio-hifi-files-but-i-only-have-1/15280 "2025-04-23T16:44:10Z")
Hello! I’m an undergrad student, so please excuse me if there is a simple solution to this I’m not seeing. I’m trying to run the first workflow–K-mer profiling–in the VGP-Galaxy Assembly Workflows Series by following t… --- ## [VGP decontamination](https://help.galaxyproject.org/t/vgp-decontamination/11609)
**Author:** [@yz\_333](https://help.galaxyproject.org/u/yz_333)\ **Replies:** 4\ **Last updated:** [March 13, 2025, 5:22pm UTC](https://help.galaxyproject.org/t/vgp-decontamination/11609 "2025-03-13T17:22:50Z")
Hello VGP mentors, I was following the VGP assembly pipeline to assemble my newly sequenced genome, which is a big convinence for someone like me who didn’t have a lot of bioinformatics experience. However, I found ther… --- ## [VGP- unable to select or add hind3 restriction enzyme to Hi-C scaffolding workflow](https://help.galaxyproject.org/t/vgp-unable-to-select-or-add-hind3-restriction-enzyme-to-hi-c-scaffolding-workflow/13406)
**Author:** [@HT87](https://help.galaxyproject.org/u/HT87)\ **Replies:** 1\ **Last updated:** [September 10, 2024, 7:29pm UTC](https://help.galaxyproject.org/t/vgp-unable-to-select-or-add-hind3-restriction-enzyme-to-hi-c-scaffolding-workflow/13406 "2024-09-10T19:29:39Z")
Hello, I noticed that VGP Hi-C scaffolding workflow does provide few selections for restriction enzyme input and does not allow a custom input. I used HindIII in my Hi-C library which have recognition site on AAGCTT. H… --- ## [Purging step in VGP removing bacterial symbiont from genome](https://help.galaxyproject.org/t/purging-step-in-vgp-removing-bacterial-symbiont-from-genome/9456)
**Author:** [@HT87](https://help.galaxyproject.org/u/HT87)\ **Replies:** 1\ **Last updated:** [February 15, 2023, 3:18pm UTC](https://help.galaxyproject.org/t/purging-step-in-vgp-removing-bacterial-symbiont-from-genome/9456 "2023-02-15T15:18:01Z")
Hello, I am following VGP workflow and have an issue with purging step. I am using purging mainly to decrease the number of contigs i have as when doing direct scaffolding from hifiasm i am ending up with big number of … --- ## [Any tools to merge two de novo genomic assemblies?](https://help.galaxyproject.org/t/any-tools-to-merge-two-de-novo-genomic-assemblies/8326)
**Author:** [@daikez](https://help.galaxyproject.org/u/daikez)\ **Replies:** 4\ **Last updated:** [September 23, 2022, 7:59pm UTC](https://help.galaxyproject.org/t/any-tools-to-merge-two-de-novo-genomic-assemblies/8326 "2022-09-23T19:59:19Z")
Hi, I have generated two genomic assemblies with different parameters. Thus there are gaps in different genomic regions. So I wander if there are any Galaxy tools that can merge two or more long reads assemblies?