rsx-rs
mod run_profile¶
- module run_profile¶
Strict, versioned configuration for complete rsx command invocations.
Enums
- enum CommandProfile¶
- Process(ProcessProfile)¶
- Distrib(DistribProfile)¶
- Signif(SignifProfile)¶
- Triage(TriageProfile)¶
- Freq(FreqProfile)¶
- Depth(DepthProfile)¶
- Map(MapProfile)¶
- Subset(SubsetProfile)¶
- Merge(MergeProfile)¶
- Pca(PcaProfile)¶
- enum RunProfileError¶
- Parse(toml::de::Error)¶
- Encode(toml::ser::Error)¶
- UnsupportedSchema(u32)¶
- EmptyProfileName¶
Traits implemented
- impl Display for RunProfileError¶
- impl Error for RunProfileError¶
- impl From<toml::de::Error> for RunProfileError¶
- impl From<toml::ser::Error> for RunProfileError¶
- enum StreamingMode¶
- Auto¶
- Memory¶
- Streaming¶
Implementations
- impl StreamingMode¶
Functions
- const fn as_str(self) -> &'static str¶
Structs and Unions
- struct DepthProfile¶
- markers_table: String¶
- popmap: String¶
- output_file: String¶
- min_frequency: f32¶
- streaming_mode: StreamingMode¶
- streaming_threshold_bytes: u64¶
- struct DistribProfile¶
- markers_table: String¶
- popmap: String¶
- output_file: String¶
- min_depth: u16¶
- groups: Option<Vec<String>>¶
- signif_threshold: f32¶
- disable_correction: bool¶
- correction: String¶
- test_method: String¶
- output_bayes: bool¶
- bayes_model: ModelProfile¶
- struct MapProfile¶
- markers_file: String¶
- output_file: String¶
- popmap: String¶
- genome_file: String¶
- min_depth: u16¶
- groups: Option<Vec<String>>¶
- min_quality: u32¶
- min_frequency: f32¶
- signif_threshold: f32¶
- disable_correction: bool¶
- struct MergeProfile¶
- input_files: Vec<String>¶
- output_file: String¶
- buffer_size: usize¶
- output_parquet: bool¶
- struct PcaProfile¶
- markers_table: String¶
- output_dir: String¶
- min_depth: u16¶
- components: Option<usize>¶
- struct ProcessProfile¶
- input_dir: String¶
- output_file: String¶
- threads: u32¶
- min_depth: u16¶
- kmer_dedup: Option<usize>¶
- struct RunProfile¶
- schema_version: u32¶
- profile_name: String¶
- reproducibility_archive: Option<String>¶
- write_hydrated_profile: Option<String>¶
- run: CommandProfile¶
Implementations
- impl RunProfile¶
Functions
- fn command_name(&self) -> &'static str¶
- fn parse_toml(input: &str) -> Result<Self, RunProfileError>¶
- fn to_toml(&self) -> Result<String, RunProfileError>¶
- struct SignifProfile¶
- markers_table: String¶
- popmap: String¶
- output_file: String¶
- min_depth: u16¶
- groups: Option<Vec<String>>¶
- signif_threshold: f32¶
- correction: String¶
- test_method: String¶
- backend: String¶
- output_fasta: bool¶
- output_bayes: bool¶
- bayes_model: ModelProfile¶
- struct SubsetProfile¶
- markers_table: String¶
- popmap: String¶
- output_file: String¶
- min_depth: u16¶
- groups: Option<Vec<String>>¶
- signif_threshold: f32¶
- disable_correction: bool¶
- output_fasta: bool¶
- min_group1: u32¶
- min_group2: u32¶
- max_group1: u32¶
- max_group2: u32¶
- min_individuals: u32¶
- max_individuals: u32¶