package biocaml

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in-package search v0.2.0

biocaml.base
- Biocaml_base
  - Bed
    
    Bed3
    
    Bed4
    
    Bed5
    
    Bed5_raw
  - Fasta
    
    Parser
    
    Parser0
  - Gff
  - Line
  - Lines
    
    Parser
  - Macs2
    
    Broad_peaks
    
    Xls
  - Table
    
    Field
  - Ucsc_genome_browser
biocaml.ez
- Biocaml_ez
  - Bam
  - Bamstats
  - Fasta
  - Fastq
    
    Illumina
  - Lines
    
    Buffer
    
    MakeIO
    
    Future
    
    Deferred
    
    Let_syntax
    
    Let_syntax
    
    Open_on_rhs
    
    List
    
    Monad_infix
    
    Or_error
    
    List
    
    In_thread
    
    Pipe
    
    Reader
    
    Reader
    
    Read_result
    
    Unix
    
    Writer
    
    Transform
  - Phred_score
  - Range
  - Roman_num
  - Sam
  - Seq_range
  - Strand
biocaml.unix
- Biocaml_unix
  - Accu
    
    Counter
    
    Relation
  - Bam
    
    Alignment0
    
    Header
  - Bamstats
    
    Chr_histogram
    
    Fragment_length_histogram
  - Bar
  - Bed
    
    Error
    
    Transform
  - Bgzf
  - Bin_pred
  - Biocaml_result
    
    Export
    
    Let_syntax
    
    Let_syntax
    
    Open_on_rhs
    
    List
    
    Monad_infix
    
    Stable
    
    V1
    
    V1_stable_unit_test
  - Bpmap
  - Cel
  - Chr
    
    Error
  - Entrez
    
    Fetch
    
    Make
    
    Dbtag
    
    F
    
    Gene
    
    Gene_ref
    
    Object_id
    
    Pubmed
    
    PubmedSummary
  - Fasta
  - Fastq
    
    Illumina
    
    MakeIO
    
    Future
    
    Deferred
    
    Let_syntax
    
    Let_syntax
    
    Open_on_rhs
    
    List
    
    Monad_infix
    
    Or_error
    
    List
    
    In_thread
    
    Pipe
    
    Reader
    
    Reader
    
    Read_result
    
    Unix
    
    Writer
  - File_mapper
  - Future
    
    S
    
    Deferred
    
    Let_syntax
    
    Let_syntax
    
    Open_on_rhs
    
    List
    
    Monad_infix
    
    Or_error
    
    List
    
    In_thread
    
    Pipe
    
    Reader
    
    Reader
    
    Read_result
    
    Unix
    
    Writer
  - Future_unix
    
    Deferred
    
    Let_syntax
    
    Let_syntax
    
    Open_on_rhs
    
    List
    
    Monad_infix
    
    Or_error
    
    List
    
    In_thread
    
    Pipe
    
    Reader
    
    Reader
    
    Read_result
    
    Unix
    
    Writer
  - GenomeMap
    
    Chromosome
    
    Make
    
    Chromosome
    
    LMap
    
    LSet
    
    Selection
    
    Signal
  - Gff
    
    Error
    
    Tags
    
    Transform
  - Histogram
  - Interval_tree
  - Iset
  - Jaspar
  - Line
  - Lines
    
    Buffer
    
    MakeIO
    
    Future
    
    Deferred
    
    Let_syntax
    
    Let_syntax
    
    Open_on_rhs
    
    List
    
    Monad_infix
    
    Or_error
    
    List
    
    In_thread
    
    Pipe
    
    Reader
    
    Reader
    
    Read_result
    
    Unix
    
    Writer
    
    Transform
  - Math
  - Msg
    
    Tree
  - MzData
    
    Precursor
  - Phred_score
  - Pos
  - Psl
    
    Error
    
    Transform
  - Pwm
  - RSet
  - Range
  - Roman_num
  - Sam
    
    Flags
    
    MakeIO
    
    Future
    
    Deferred
    
    Let_syntax
    
    Let_syntax
    
    Open_on_rhs
    
    List
    
    Monad_infix
    
    Or_error
    
    List
    
    In_thread
    
    Pipe
    
    Reader
    
    Reader
    
    Read_result
    
    Unix
    
    Writer
  - Sbml
  - Seq
  - Seq_range
    
    Identifier
    
    Map
    
    Key
    
    Provide_bin_io
    
    Key
    
    Provide_hash
    
    Key
    
    Provide_of_sexp
    
    Key
    
    Tree
    
    Provide_of_sexp
    
    K
    
    Replace_polymorphic_compare
    
    Set
    
    Elt
    
    Provide_bin_io
    
    Elt
    
    Provide_hash
    
    Elt
    
    Provide_of_sexp
    
    Elt
    
    Tree
    
    Provide_of_sexp
    
    Elt
    
    Make
    
    S
    
    Map
    
    Key
    
    Provide_bin_io
    
    Key
    
    Provide_hash
    
    Key
    
    Provide_of_sexp
    
    Key
    
    Tree
    
    Provide_of_sexp
    
    K
    
    Replace_polymorphic_compare
    
    Set
    
    Elt
    
    Provide_bin_io
    
    Elt
    
    Provide_hash
    
    Elt
    
    Provide_of_sexp
    
    Elt
    
    Tree
    
    Provide_of_sexp
    
    Elt
  - Sgr
  - Solexa_score
  - Strand
  - Table
    
    Row
    
    Error
    
    Tags
    
    Transform
  - Tfxm
    
    object_t
  - Track
    
    Error
    
    Transform
  - Transcripts
  - Vcf
    
    Transform
  - Wig
    
    Error
    
    Tags
    
    Transform
  - Zip
    
    Default
    
    Error
    
    Transform

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High-level parsing

This module provides a function that can be used to convert a stream of strings (representing consecutive chunks of a FASTA file) into a sequence of FASTA items.

type state

val initial_state : ?fmt:fmt -> unit -> state

val step : 
  state ->
  string option ->
  (state * item list, [> parser_error ]) Pervasives.result