Welcome to Snakecdysis documentation!
Are you looking for a simplified installation process for your Snakemake workflows, including the various Python packages and the multitude of tools used by your pipelines?
Would you like to simplify the use of your workflows with user-friendly commands and subcommands that even non-bioinformatician users can easy use? Look no further - Snakecdysis is the solution for you!
About this package
Snakecdysis offers a straightforward and user-friendly solution for encapsulating your Snakemake workflow, transforming it into a robust bioinformatics tool. Combined with Snakecdysis, your Snakemake workflow is converted into a Python package that can be effortlessly installed and executed on both clusters and laptops. The package generated by Snakecdysis effectively offers a diverse set of tools and functionalities designed for both developers and users.
Are you looking for a simplified installation process for your Snakemake workflows, including the various Python packages and the multitude of tools used by your pipelines?
Would you like to simplify the use of your workflows with user-friendly commands and subcommands that even non-bioinformatician users can easy use? Look no further - Snakecdysis is the solution for you!
Installation
Package documentation
- Snakecdysis package
- snakecdysis.cli_wrapper Module
- snakecdysis.snake_wrapper Module
- Classes
- SnakEcdysis
SnakEcdysisSnakEcdysis.args_cluster_configSnakEcdysis.args_tools_pathSnakEcdysis.datatest_url_filesSnakEcdysis.default_profileSnakEcdysis.description_toolSnakEcdysis.docsSnakEcdysis.export_use_yamlSnakEcdysis.get_active_tools_pathSnakEcdysis.git_config_pathSnakEcdysis.git_tools_pathSnakEcdysis.git_urlSnakEcdysis.install_modeSnakEcdysis.install_pathSnakEcdysis.latest_versionSnakEcdysis.singularity_url_filesSnakEcdysis.snakecdysis_versionSnakEcdysis.snakefileSnakEcdysis.snakemake_scriptsSnakEcdysis.soft_nameSnakEcdysis.string_to_dagSnakEcdysis.tools_modeSnakEcdysis.user_cluster_configSnakEcdysis.user_tools_pathSnakEcdysis.versionSnakEcdysis.check_and_download_singularity()SnakEcdysis.check_dir_or_string()SnakEcdysis.check_file_or_string()SnakEcdysis.clean_home()SnakEcdysis.create_bash_completion()SnakEcdysis.fail()SnakEcdysis.get_config_value()SnakEcdysis.get_epilog()SnakEcdysis.get_last_version()SnakEcdysis.get_tool_configfile()SnakEcdysis.set_config_value()SnakEcdysis.tools_version_to_df()SnakEcdysis.write_config()SnakEcdysis.write_user_tools_path()
- SnakeInstaller
SnakeInstallerSnakeInstaller.args_cluster_configSnakeInstaller.args_tools_pathSnakeInstaller.datatest_url_filesSnakeInstaller.default_profileSnakeInstaller.description_toolSnakeInstaller.docsSnakeInstaller.get_active_tools_pathSnakeInstaller.git_config_pathSnakeInstaller.git_tools_pathSnakeInstaller.git_urlSnakeInstaller.install_modeSnakeInstaller.install_pathSnakeInstaller.latest_versionSnakeInstaller.singularity_url_filesSnakeInstaller.snakecdysis_versionSnakeInstaller.snakefileSnakeInstaller.snakemake_scriptsSnakeInstaller.soft_nameSnakeInstaller.tools_modeSnakeInstaller.user_cluster_configSnakeInstaller.user_tools_pathSnakeInstaller.versionSnakeInstaller.check_and_download_singularity()SnakeInstaller.clean_home()SnakeInstaller.create_bash_completion()SnakeInstaller.fail()SnakeInstaller.get_epilog()SnakeInstaller.get_last_version()SnakeInstaller.get_tool_configfile()SnakeInstaller.tools_version_to_df()SnakeInstaller.write_user_tools_path()
- SnakEcdysis
- Classes
- Workflow functions
Useful functions