v1.0.0 – Czechoslovakian Wolfdog
[1.0.0] - Czechoslovakian Wolfdog - [2023-05-18]
Initial release of sanger-tol/genomenote, created with the nf-core template.
Enhancements & fixes
- Created with nf-core/tools template v2.8.0.
- Subworkflow to create HiC contact maps using Cooler.
- Subworkflow to create summary table using BUSCO, MerquryFK, NCBI datasets, and Samtools.
Parameters
| Old parameter | New parameter |
|---|---|
| --input | |
| --binsize | |
| --kmer_size | |
| --lineage_db | |
| --fasta |
NB: Parameter has been updated if both old and new parameter information is present.
NB: Parameter has been added if just the new parameter information is present.
NB: Parameter has been removed if new parameter information isn't present.
Software dependencies
Note, since the pipeline is using Nextflow DSL2, each process will be run with its own Biocontainer. This means that on occasion it is entirely possible for the pipeline to be using different versions of the same tool. However, the overall software dependency changes compared to the last release have been listed below for reference.
| Dependency | Old version | New version |
|---|---|---|
| bedtools | 2.30.0 | |
| busco | 5.4.3 | |
| cooler | 0.8.11 | |
| fastk | f18a4e6d2207539f7b84461daebc54530a9559b0 | |
| merquryfk | 8ae344092df5dcaf83cfb7f90f662597a9b1fc61 | |
| ncbi-datasets-cli | 14.2.2 | |
| Nextflow | 23.04.0 | |
| nf-core/tools | 2.8.0 | |
| R | 4.2.0 | |
| samtools | 1.17 |
NB: Dependency has been updated if both old and new version information is present.
NB: Dependency has been added if just the new version information is present.
NB: Dependency has been removed if version information isn't present.