The format is based on Keep a Changelog and this project adheres to Semantic Versioning.
[1.1.0] – Polite Platyfish – [2024-12-10]
- Upgrade to the version 2.8 of the nf-core template.
- nf-core module updates to remove Anaconda references
- Updated configuration of the GitHub CI to improve testing.
- Simpler samplesheet format, with just the path to the Fasta file and the output directory.
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 |
|---|---|---|
| htslib | 1.20 | |
| MultiQC | 1.13 | 1.20 |
| Python | 3.8.3,3.9 | 3.9.1 |
| samtools | 1.21 |
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.
[1.0.0] – Apophis – [2022-10-08]
Initial release of sanger-tol/sequencecomposition, created with the nf-core template.
- Run
fasta_windowson an assembly - Convert all outputs to TSV and bedGraph files
- Index all output files with
tabix
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 |
|---|---|---|
| fasta_windows | 0.2.4 | |
| MultiQC | 1.13 | |
| Python | 3.8.3,3.9 | |
| tabix | 1.11 |
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.
| Old parameter | New parameter |
|---|---|
| --input | |
| --fasta | |
| --window_size_info | |
| --selected_fw_output |