Description
The data in this repository is to provide the scripts used in the assembly of the Bombus huntii genome. It can be used to replicate the steps necessary to assemble the genome described in National Center for Biotechnology Information (NCBI) BioProject: PRJNA858880. This genome assembly workflow was performed on the United States Department of Agriculture (USDA) - SCINet/Mississippi State University High Performance Computing Cluster (HPC) Atlas and installed via Conda.
Dependencies
- bamtools v2.5.1
- pigz v2.6
- any2fasta v0.4.2
- Singularity v3.8.3
- NCBI FCS adaptor
- HiFiAdapterFilt v3.0.1
- HiFiASM v0.19.3-r572
- BBmap v38.90
- KMC v3.2.1
- GenomeScope2 v2.0
- BLAST+ v2.0
- diamond v2.0.9
- minimap2 v2.22-r1101
- blobtoolkit2 v4.1.5
- blobblurb v1.2
- seqer v1.2
- yahs v1.1
Resources
| Name | Format | Description | Link |
|---|---|---|---|
| busco5.sh | SH | Open resource | |
| genomescope2.sh | SH | Open resource | |
| blob.sh | SH | Open resource | |
| hifiasm.sh | SH | Open resource | |
| hifiadapterfiltFCS.sh | SH | Open resource | |
| hic_yahs.sh | SH | Open resource |