module plugins.sample_processors.htsinfer

Infer missing sample metadata with HTSinfer.

Global Variables

• map_model_to_zarp
• map_zarp_to_model

---

class SampleProcessorHTSinfer

Infer metadata with HTSinfer.

Args:

• records: Pandas DataFrame object.
• config: Config object.

Attributes:

• records: Pandas DataFrame object.
• config: Config object.

---

method process

process(
    loc: Path = PosixPath('/home/runner/work/zarp-cli/zarp-cli'),
    workflow: Path = PosixPath('/home/runner/work/zarp-cli/zarp-cli/Snakefile')
) → DataFrame

Infer metadata with HTSinfer.

Args:

• loc: Working directory. Data may be located within child directories. Defaults to current working directory.
• workflow: Path to Snakemake workflow for running HTSinfer. Defaults to Snakefile in current working directory.

Returns: Dataframe with inferred sample metadata.