Index of modules

A
About [Biocaml]
Accu [Biocaml]
Arg [Biocaml_internal_pervasives]
Array [Biocaml_internal_pervasives]
B
Backtrace [Biocaml_internal_pervasives]
Bag [Biocaml_internal_pervasives]
Bam [Biocaml]
Bar [Biocaml]
Bed [Biocaml]
Big_int [Biocaml_internal_pervasives]
Bigbuffer [Biocaml_internal_pervasives]
Bigstring [Biocaml_internal_pervasives]
Bigsubstring [Biocaml_internal_pervasives]
Bin_prot [Biocaml_internal_pervasives]
Binary_packing [Biocaml_internal_pervasives]
Biocaml
Biocaml_about	Version string of the library: `"0.2.0"`
Biocaml_accu	A datastructure (based on Hashtbl) to accumulate values.
Biocaml_bam	0-based, -1 if undefined
Biocaml_bar	Affymetrix's BAR files.
Biocaml_bed	BED data.
Biocaml_bpmap	Affymetrix's BPMAP files.
Biocaml_cel	Affymetrix's CEL files.
Biocaml_chrName	Chromosome names.
Biocaml_entrez	Entrez Utilities API
Biocaml_fasta	FASTA files.
Biocaml_fastq	FASTQ data.
Biocaml_genomeMap	Indicator function on a genome
Biocaml_gff	GFF files.
Biocaml_histogram	Histograms with polymorphic bin types.
Biocaml_internal_pervasives	Internal "standard" library.
Biocaml_interval_tree	Interval tree (data structure)
Biocaml_iset	DIET : Discrete Interval Encoding Trees
Biocaml_jaspar
Biocaml_line	Single line of text.
Biocaml_lines	Lines of a file.
Biocaml_math	Numeric mathematics.
Biocaml_msg	Consistent printing of errors, warnings, and bugs.
Biocaml_mzData	Read mzData files (mass spectrometry data format).
Biocaml_phred_score	PHRED quality scores.
Biocaml_pos	File positions.
Biocaml_pwm	Position-weight matrix
Biocaml_rSet	Efficient integer sets when many elements expected to be large contiguous sequences of integers.
Biocaml_range	Ranges of contiguous integers (integer intervals).
Biocaml_roc	Performance measurement for binary classification.
Biocaml_romanNum	Roman numerals.
Biocaml_sam	SAM files.
Biocaml_sbml	SBML file parser.
Biocaml_seq	Nucleic acid sequences.
Biocaml_sgr	Sequence Graph (SGR) files.
Biocaml_solexa_score	Solexa quality scores.
Biocaml_strandName	Strand names.
Biocaml_stream	This module is an enhancement of the stdlib's `Stream` module.
Biocaml_streamable	A signature for data structures that may be converted to and from a `Stream.t`.
Biocaml_table	Generic “tables” (like CSV, TSV, Bed …).
Biocaml_tags
Biocaml_track	Track files in UCSC Genome Browser format.
Biocaml_transcripts	Transcripts are integer intervals containing a list of exons.
Biocaml_transform	Buffered transforms.
Biocaml_wig	WIG data.
Biocaml_zip	Streaming interface to the Zlib library.
Bool [Biocaml_internal_pervasives]
Bpmap [Biocaml]
Buffer [Biocaml_internal_pervasives]
Buffer [Biocaml_lines]	Buffer of lines.
C
Caml [Biocaml_internal_pervasives]
Cel [Biocaml]
Char [Biocaml_internal_pervasives]
ChrName [Biocaml]
Command [Biocaml_internal_pervasives]
Counter [Biocaml_accu]
D
Dbtag [Biocaml_entrez.Make]
Debug [Biocaml_internal_pervasives]
Dequeue [Biocaml_internal_pervasives]
E
Entrez [Biocaml]
Error [Biocaml_sam]
Error [Biocaml_lines]	Errors.
Error [Biocaml_fastq]
Error [Biocaml_fasta]	Errors.
Error [Biocaml_bed]
Exceptionful [Biocaml_fastq]
Exn [Biocaml_internal_pervasives]
F
Fasta [Biocaml]
Fastq [Biocaml]
Filename [Biocaml_internal_pervasives]
Flags [Biocaml_sam]
Float [Biocaml_internal_pervasives]
Fn [Biocaml_internal_pervasives]
G
Gene [Biocaml_entrez.Make]
Gene_ref [Biocaml_entrez.Make]
GenomeMap [Biocaml]
Gff [Biocaml]
H
Hashtbl [Biocaml_internal_pervasives]
Histogram [Biocaml]
I
In_channel [Biocaml_internal_pervasives]
Infix [Biocaml_stream]
Int [Biocaml_internal_pervasives]
Int32 [Biocaml_internal_pervasives]
Int63 [Biocaml_internal_pervasives]
Int64 [Biocaml_internal_pervasives]
Interfaces [Biocaml_internal_pervasives]
Interval [Biocaml_internal_pervasives]
Interval_tree [Biocaml]
J
Jaspar [Biocaml]
L
LMap [Biocaml_genomeMap]	A set of locations with an attached value on each of them
LSet [Biocaml_genomeMap]	A set of locations
Lazy [Biocaml_internal_pervasives]
Line [Biocaml]
Line_oriented [Biocaml_transform]	A buffering parsing_buffer for line-oriented formats.
Lines [Biocaml]
List [Biocaml_internal_pervasives]
Low_level_parsing [Biocaml_sam]
M
Make [Biocaml_entrez]
Map [Biocaml_internal_pervasives]
Math [Biocaml]
Monad [Biocaml_internal_pervasives]
Msg [Biocaml]
MzData [Biocaml]
N
Nat [Biocaml_internal_pervasives]
Nativeint [Biocaml_internal_pervasives]
Num [Biocaml_internal_pervasives]
O
Object_id [Biocaml_entrez.Make]
Option [Biocaml_internal_pervasives]
Order [Biocaml_internal_pervasives]
Out_channel [Biocaml_internal_pervasives]
P
Parse [Biocaml_internal_pervasives]	Utility functions to write manual parsers.
Phred_score [Biocaml]
Pos [Biocaml]
Precursor [Biocaml_mzData]
Printer_queue [Biocaml_transform]	A generic buffering printer.
Printexc [Biocaml_internal_pervasives]
Printf [Biocaml_internal_pervasives]
Pubmed [Biocaml_entrez.Make]
PubmedSummary [Biocaml_entrez.Make]
Pwm [Biocaml]
Q
Queue [Biocaml_internal_pervasives]
R
RSet [Biocaml]
Random [Biocaml_internal_pervasives]
Range [Biocaml]
Ratio [Biocaml_internal_pervasives]
Relation [Biocaml_accu]
Result [Biocaml_internal_pervasives]
Result [Biocaml_fasta]
Roc [Biocaml]
RomanNum [Biocaml]
Row [Biocaml_table]	Definition of rows
S
Sam [Biocaml]
Sbml [Biocaml]
Selection [Biocaml_genomeMap]	Indicator function on a genome
Seq [Biocaml]
Set [Biocaml_internal_pervasives]
Sgr [Biocaml]
Solexa_score [Biocaml]
Stack [Biocaml_internal_pervasives]
StrandName [Biocaml]
Stream [Biocaml_internal_pervasives]
Stream [Biocaml]
Streamable [Biocaml_internal_pervasives]
Streamable [Biocaml]
String [Biocaml_internal_pervasives]
Sys [Biocaml_internal_pervasives]
T
Table [Biocaml]
Tags [Biocaml]
Time [Biocaml_internal_pervasives]
Track [Biocaml]
Transform [Biocaml_zip]
Transform [Biocaml_wig]
Transform [Biocaml]
Transform [Biocaml_track]	Low-level transforms.
Transform [Biocaml_sam]
Transform [Biocaml_lines]
Transform [Biocaml_gff]
Transform [Biocaml_fastq]
Transform [Biocaml_fasta]	Low-level transforms.
Transform [Biocaml_bed]
Transform [Biocaml_bam]
Tree [Biocaml_msg]	Message tree for more complex messages.
U
Url [Biocaml_internal_pervasives]	Operations on URL-style encodings.
W
Wig [Biocaml]
Z
Zip [Biocaml]