Struct faimm::FastaView

pub struct FastaView<'a>(_);

A view of a slice of the fasta file bounded by provided coordinates

Methods

impl<'a> FastaView<'a>

pub fn count_bases(&self) -> BaseCounts

Count the occurences of A, C, G, T, N, and other in the current view. This function does not differentiate between upper or lower case bases.

Returns a BasecCounts object.

pub fn bases(     &self ) -> impl Iterator<Item = &'a u8>

Iterator over the bases in the current view. Bases are returned as u8 representations of the chars in the fasta file. Keep only that chars between 164 and 128 (effectively skipping newlines)

Trait Implementations

impl<'a> ToString for FastaView<'a>

Returns a newly allocated, utf8-validated string with the sequence data in Self

fn to_string(&self) -> String

Converts the given value to a String.

impl<'a> Read for FastaView<'a>

fn read(&mut self, buf: &mut [u8]) -> Result<usize>

Pull some bytes from this source into the specified buffer, returning how many bytes were read.

unsafe fn initializer(&self) -> Initializer

🔬 This is a nightly-only experimental API. (read_initializer)

Determines if this Reader can work with buffers of uninitialized memory.

fn read_to_end(&mut self, buf: &mut Vec<u8>) -> Result<usize, Error>

Read all bytes until EOF in this source, placing them into buf.

fn read_to_string(&mut self, buf: &mut String) -> Result<usize, Error>

Read all bytes until EOF in this source, appending them to buf.

fn read_exact(&mut self, buf: &mut [u8]) -> Result<(), Error>

Read the exact number of bytes required to fill buf.

fn by_ref(&mut self) -> &mut Self

Creates a "by reference" adaptor for this instance of Read.

fn bytes(self) -> Bytes<Self>

Transforms this Read instance to an [Iterator] over its bytes.

fn chars(self) -> Chars<Self>

Deprecated since 1.27.0

: Use str::from_utf8 instead: https://doc.rust-lang.org/nightly/std/str/struct.Utf8Error.html#examples

🔬 This is a nightly-only experimental API. (io)

the semantics of a partial read/write of where errors happen is currently unclear and may change

Transforms this Read instance to an [Iterator] over [char]s.

fn chain<R>(self, next: R) -> Chain<Self, R> where     R: Read,

Creates an adaptor which will chain this stream with another.

fn take(self, limit: u64) -> Take<Self>

Creates an adaptor which will read at most limit bytes from it.