SeqAn3
3.4.0-rc.4
The Modern C++ library for sequence analysis.
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Welcome
Setup
Setting up library tests
Quick Setup (using CMake)
Tutorial
First steps with SeqAn
Parsing command line arguments with Sharg
C++ Concepts
Alphabets in SeqAn
Ranges
Minimisers
Sequence File Input and Output
Pairwise Alignment
Indexing and searching with SeqAn
SAM Input and Output in SeqAn
Implementing your own read mapper with SeqAn
How-To
Porting from SeqAn2
How to write an argument parser with subcommands
How to serialise SeqAn data structures
How to write a view
How to write your own alphabet
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Here is a list of all documented namespace typedefs with links to the namespaces they belong to:
- a -
alphabet_char_t :
seqan3
alphabet_phred_t :
seqan3
alphabet_rank_t :
seqan3
at :
seqan3::list_traits
,
seqan3::pack_traits
- b -
back :
seqan3::list_traits
,
seqan3::pack_traits
- c -
chunk :
seqan3::views
common_pair :
seqan3
common_tuple :
seqan3
compression_formats :
seqan3::detail
concat :
seqan3::list_traits
- d -
debug :
seqan3::align_cfg::detail
default_sdsl_index_type :
seqan3
default_simd_backend :
seqan3::detail
deferred_type_t :
seqan3::detail
dna15q :
seqan3
dna4q :
seqan3
dna5q :
seqan3
drop :
seqan3::list_traits
,
seqan3::pack_traits
drop_front :
seqan3::list_traits
,
seqan3::pack_traits
drop_last :
seqan3::list_traits
,
seqan3::pack_traits
- e -
edit_distance_base :
seqan3::detail
enable_state_t :
seqan3::detail
- f -
front :
seqan3::list_traits
,
seqan3::pack_traits
- g -
gapped :
seqan3
- i -
ignore_t :
seqan3::detail
invoke_deferred_crtp_base :
seqan3::detail
iter_pointer_t :
seqan3::detail
iterator_concept_tag_t :
seqan3::detail
- j -
join_with :
seqan3::views
- m -
matrix_offset :
seqan3::detail
maybe_const_iterator_t :
seqan3::detail
maybe_const_range_t :
seqan3::detail
maybe_const_sentinel_t :
seqan3::detail
min_viable_uint_t :
seqan3::detail
- p -
parallel :
seqan3::align_cfg
,
seqan3::search_cfg
- r -
range_innermost_value_t :
seqan3
repeat :
seqan3::list_traits
replace_at :
seqan3::list_traits
,
seqan3::pack_traits
rna15q :
seqan3
rna4q :
seqan3
rna5q :
seqan3
row_wise_matrix :
seqan3::detail
- s -
sam_tag_variant :
seqan3::detail
sdsl_wt_index_type :
seqan3
search_scheme_dyn_type :
seqan3::detail
search_scheme_type :
seqan3::detail
simd_matrix_coordinate :
seqan3::detail
simd_type_t :
seqan3::simd
split_after :
seqan3::list_traits
,
seqan3::pack_traits
strip_cereal_wrapper_t :
seqan3::detail
strip_type_identity_t :
seqan3::detail
- t -
take :
seqan3::list_traits
,
seqan3::pack_traits
take_last :
seqan3::list_traits
,
seqan3::pack_traits
transfer_template_args_onto_t :
seqan3::detail
transfer_template_vargs_onto_t :
seqan3::detail
transform :
seqan3::list_traits
,
seqan3::pack_traits
transformation_trait_or :
seqan3::detail
transformation_trait_or_t :
seqan3::detail
tuple_type_list_t :
seqan3::detail
type_reduce_t :
seqan3
- u -
unaligned_seq_t :
seqan3::detail
- v -
valid_template_spec_or_t :
seqan3::detail
- z -
zip :
seqan3::views
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3.4.0
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3.1.0
3.0.3
3.0.2
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3.0.0
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