Includes the aligned_sequence and the related insert_gap and erase_gap functions to enable stl container support. More...
#include <iomanip>
#include <tuple>
#include <range/v3/algorithm/for_each.hpp>
#include <seqan3/alignment/exception.hpp>
#include <seqan3/alphabet/gap/all.hpp>
#include <seqan3/core/concept/tuple.hpp>
#include <seqan3/core/detail/debug_stream_type.hpp>
#include <seqan3/core/type_traits/all.hpp>
#include <seqan3/range/container/concept.hpp>
#include <seqan3/range/views/slice.hpp>
#include <seqan3/range/views/to_char.hpp>
#include <seqan3/range/views/zip.hpp>
#include <seqan3/std/ranges>
Go to the source code of this file.
Namespaces | |
seqan3 | |
The main SeqAn3 namespace. | |
Functions | |
template<tuple_like tuple_t, typename char_t > | |
debug_stream_type< char_t > & | seqan3::operator<< (debug_stream_type< char_t > &stream, tuple_t const &alignment) |
Stream operator for alignments, which are represented as tuples of aligned sequences. More... | |
Aligned sequence interface for containers over the seqan3::gapped alphabet | |
Enables containers to model seqan3::aligned_sequence if they model seqan3::sequence_container and have a value type of the seqan3::gapped alphabet. | |
Aligned sequence interface for ranges that have the corresponding member functions. | |
Enables ranges to model seqan3::aligned_sequence if they have the member functions insert_gap() and erase_gap(). | |
template<typename range_type > | |
std::ranges::iterator_t< range_type > | seqan3::erase_gap (range_type &rng, std::ranges::iterator_t< range_type > const first, std::ranges::iterator_t< range_type > const last) |
An implementation of seqan3::aligned_sequence::erase_gap for ranges with the corresponding member function erase_gap(first, last). More... | |
template<typename range_type > | |
std::ranges::iterator_t< range_type > | seqan3::erase_gap (range_type &rng, std::ranges::iterator_t< range_type > const pos_it) |
An implementation of seqan3::aligned_sequence::erase_gap for ranges with the corresponding member function erase_gap(it). More... | |
template<typename range_type > | |
std::ranges::iterator_t< range_type > | seqan3::insert_gap (range_type &rng, std::ranges::iterator_t< range_type > const pos_it, typename range_type::size_type const size=1) |
An implementation of seqan3::aligned_sequence::insert_gap for ranges with the corresponding member function insert_gap(it, size). More... | |
Includes the aligned_sequence and the related insert_gap and erase_gap functions to enable stl container support.