Struct biofile::plink_bim::PlinkBim

pub struct PlinkBim { /* fields omitted */ }

Methods

impl PlinkBim

pub fn new(filepath: &str) -> Result<PlinkBim, Error>

pub fn new_with_partitions(
    filepath: &str,
    partitions: HashMap<PartitionKeyType, OrderedIntegerSet<usize>>
) -> Result<PlinkBim, Error>

pub fn new_with_partition_file(
    bim_filepath: &str,
    partition_filepath: &str
) -> Result<PlinkBim, Error>

pub fn get_fileline_partitions(
    &self
) -> Option<HashMap<String, OrderedIntegerSet<usize>>>

pub fn get_fileline_partitions_by_ref(
    &self
) -> Option<&HashMap<String, OrderedIntegerSet<usize>>>

pub fn get_fileline_partitions_from_partition_file(
    &mut self,
    partition_file_path: &str
) -> Result<HashMap<PartitionKeyType, OrderedIntegerSet<usize>>, Error>

each line in the partition file has two fields separated by space: variant_id assigned_partition

pub fn get_filepath(&self) -> &str

pub fn reset_buf(&mut self) -> Result<(), Error>

pub fn lines(&mut self) -> Lines<&mut BufReader<File>>

pub fn get_all_chroms(&mut self) -> Result<HashSet<String>, Error>

pub fn get_chrom_fileline_positions(
    &mut self,
    chrom: &str
) -> Result<OrderedIntegerSet<usize>, Error>

pub fn get_chrom_to_fileline_positions(
    &mut self
) -> Result<HashMap<String, OrderedIntegerSet<usize>>, Error>

pub fn set_fileline_partitions(
    &mut self,
    partitions: Option<HashMap<PartitionKeyType, OrderedIntegerSet<usize>>>
)

pub fn into_partitioned_by_chrom(self) -> Result<PlinkBim, Error>

pub fn into_partitioned_by_file(
    self,
    partition_file: &str
) -> Result<PlinkBim, Error>