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#[] Bio::Velvet::Graph::NodeArray
#[]= Bio::Velvet::Graph::NodeArray
#arcs Bio::Velvet::Graph
#begin_node_direction Bio::Velvet::Graph::Arc
#begin_node_forward? Bio::Velvet::Graph::Arc
#begin_node_id Bio::Velvet::Graph::Arc
#binary_version Bio::Velvet::Runner
#category Bio::Velvet::CnyUnifiedSeqNamesFileEntry
#connects_beginning_to_beginning? Bio::Velvet::Graph::Arc
#connects_beginning_to_end? Bio::Velvet::Graph::Arc
#connects_end_to_beginning? Bio::Velvet::Graph::Arc
#connects_end_to_end? Bio::Velvet::Graph::Arc
#connects_to_beginning? Bio::Velvet::Graph::Arc
#connects_to_end? Bio::Velvet::Graph::Arc
#contigs_path Bio::Velvet::Result
#corresponding_contig_length Bio::Velvet::Graph::Node
#coverage Bio::Velvet::Graph::Node
#coverages Bio::Velvet::Graph::Node
#delete Bio::Velvet::Graph::ArcArray
#delete Bio::Velvet::Graph::NodeArray
#delete_nodes_if Bio::Velvet::Graph
#direction Bio::Velvet::Graph::NodedRead
#directions_opposing? Bio::Velvet::Graph::Arc
#each Bio::Velvet::Graph::NodeArray
#each Bio::Velvet::Graph::ArcArray
#end_node_direction Bio::Velvet::Graph::Arc
#end_node_forward? Bio::Velvet::Graph::Arc
#end_node_id Bio::Velvet::Graph::Arc
#ends_of_kmers_of_node Bio::Velvet::Graph::Node
#ends_of_kmers_of_twin_node Bio::Velvet::Graph::Node
extract_entries Bio::Velvet::CnyUnifiedSeqNamesFile
extract_entries_using_grep_hack Bio::Velvet::CnyUnifiedSeqNamesFile
#get_arcs_by_node Bio::Velvet::Graph
#get_arcs_by_node_id Bio::Velvet::Graph::ArcArray
#get_arcs_by_node_id Bio::Velvet::Graph
#hash_length Bio::Velvet::Graph
#initialize Bio::Velvet::Graph::ArcArray
#initialize Bio::Velvet::Graph::NodeArray
#inspect Bio::Velvet::Graph::Node
#last_graph Bio::Velvet::Result
#last_graph_path Bio::Velvet::Result
#length Bio::Velvet::Graph::Node
#length Bio::Velvet::Graph::ArcArray
#length Bio::Velvet::Graph::NodeArray
#length_alone Bio::Velvet::Graph::Node
log Bio::Velvet::Sequences
log Bio::Velvet::Graph
#log Bio::Velvet::Logging
#multiplicity Bio::Velvet::Graph::Arc
#name Bio::Velvet::CnyUnifiedSeqNamesFileEntry
#neighbours_into_start Bio::Velvet::Graph
#neighbours_off_end Bio::Velvet::Graph
#node_id Bio::Velvet::Graph::Node
#nodes Bio::Velvet::Graph
#number_of_nodes Bio::Velvet::Graph
#number_of_sequences Bio::Velvet::Graph
#number_of_short_reads Bio::Velvet::Graph::Node
#offset_from_start_of_node Bio::Velvet::Graph::NodedRead
#parent_graph Bio::Velvet::Graph::Node
#parse_additional_noded_reads Bio::Velvet::Graph
parse_from_file Bio::Velvet::Graph
parse_from_file Bio::Velvet::Sequences
#push Bio::Velvet::Graph::ArcArray
#read_id Bio::Velvet::CnyUnifiedSeqNamesFileEntry
#read_id Bio::Velvet::Graph::NodedRead
#result_directory Bio::Velvet::Result
#reverse_sequence Bio::Velvet::Graph::Node
#sequence Bio::Velvet::Graph::Node
#sequence? Bio::Velvet::Graph::Node
#short_reads Bio::Velvet::Graph::Node
#start_coord Bio::Velvet::Graph::NodedRead
#stats_path Bio::Velvet::Result
#to_s Bio::Velvet::Graph::Arc
#to_s Bio::Velvet::Graph::Node
#velvet Bio::Velvet::Runner
#velvetg Bio::Velvet::Runner
#velvetg_stderr Bio::Velvet::Result
#velvetg_stdout Bio::Velvet::Result
#velveth Bio::Velvet::Runner
#velveth_stderr Bio::Velvet::Result
#velveth_stdout Bio::Velvet::Result