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#pragma once
// -----------------------------------------------------------------------
// Phylogenetics
typedef struct bio·Node
{
string name;
string comment;
double dist;
double support;
int nchild;
int ndescendent;
struct bio·Node *parent;
struct bio·Node *child[2];
struct bio·Node *sibling;
} bio·Node;
error phylo·addchild(bio·Node *parent, bio·Node* child);
bool phylo·isleaf(bio·Node *node);
typedef struct bio·Tree
{
bio·Node *root;
} bio·Tree;
/* newick i/o */
bio·Tree bio·readnewick(io·Peeker stream, void*, mem·Allocator heap, void*);
error bio·writenewick(bio·Tree tree, io·Putter out, void*);
// -----------------------------------------------------------------------
// Sequences
typedef struct bio·FastaReader bio·FastaReader;
typedef struct bio·Seq
{
int len;
byte *name;
byte *s;
byte *q;
} bio·Seq;
bio·FastaReader *bio·newfastareader(io·Reader stream, void *s, mem·Allocator heap, void *h);
error bio·readfasta(bio·FastaReader *rdr, bio·Seq *seq);
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