A | |
| About [Biocaml] | |
| Accu [Biocaml] | |
| Array [Biocaml_std] | |
B | |
| Bar [Biocaml] | |
| Bed [Biocaml] | |
| Biocaml | |
| Biocaml_about |
General information about the Biocaml library.
|
| Biocaml_accu |
A datastructure (based on Hashtbl) to accumulate values.
|
| 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_comments |
Comment lines.
|
| Biocaml_common |
Commonly needed values; the 'Pervasives' of Biocaml.
|
| 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_intervalTree |
Interval tree (data structure)
|
| Biocaml_invokeCmdline | |
| Biocaml_math |
Numeric mathematics.
|
| Biocaml_msg |
Consistent printing of errors, warnings, and bugs.
|
| Biocaml_mzData |
Read mzData files (mass spectrometry data format).
|
| Biocaml_phredScore |
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_solexaScore |
Solexa quality scores.
|
| Biocaml_std | |
| Biocaml_strandName |
Strand names.
|
| Biocaml_table |
Tabular data as defined by principal tag 'table'.
|
| Biocaml_tags |
Classification of data formats.
|
| Biocaml_track |
Track files in UCSC Genome Browser format.
|
| Biocaml_util |
Miscellaneous functions that don't fit elsewhere.
|
| Biocaml_wig |
WIG data.
|
| Bpmap [Biocaml] | |
| BrowserLines [Biocaml_track] |
Browser lines configure the overall display of the Genome Browser when your file is uploaded.
|
C | |
| Cel [Biocaml] | |
| Char [Biocaml_std] | |
| ChrName [Biocaml] | |
| Comments [Biocaml] | |
| Common [Biocaml] | |
| Counter [Biocaml_accu] | |
E | |
| Enum [Biocaml_std] | |
F | |
| Fasta [Biocaml] | |
| Fastq [Biocaml] | |
G | |
| GenomeMap [Biocaml] | |
| Gff [Biocaml] | |
H | |
| Histogram [Biocaml] | |
I | |
| IO [Biocaml_std] | |
| IS [Biocaml_std.IntSet] | |
| IntSet [Biocaml_std] | |
| InvokeCmdline [Biocaml] | |
L | |
| LMap [Biocaml_genomeMap] |
A set of locations with an attached value on each of them
|
| Lines [Biocaml_std] | |
| List [Biocaml_std] | |
M | |
| M [Biocaml_std.Option] | |
| Make [Biocaml_std.Set] | |
| Math [Biocaml] | |
| Msg [Biocaml_std] | |
O | |
| Option [Biocaml_std] | |
| Order [Biocaml_std] | |
P | |
| PMap [Biocaml_std] | |
| PhredScore [Biocaml] | |
| Pos [Biocaml_std] | |
| Pr [Biocaml_std.Tuple] | |
| Precursor [Biocaml_mzData] | |
| Pwm [Biocaml] | |
R | |
| RSet [Biocaml] | |
| Range [Biocaml] | |
| Roc [Biocaml] | |
| RomanNum [Biocaml] | |
S | |
| S [Biocaml_std.Set.Make] | |
| Sam [Biocaml] | |
| Sbml [Biocaml] | |
| Selection [Biocaml_genomeMap] |
Indicator function on a genome
|
| Seq [Biocaml] | |
| Set [Biocaml_std] | |
| Sgr [Biocaml] | |
| SolexaScore [Biocaml] | |
| StrandName [Biocaml] | |
| Stream [Biocaml_std] | |
| String [Biocaml_std] | |
| StringMap [Biocaml_std] | |
T | |
| Table [Biocaml] | |
| Tags [Biocaml] | |
| Test [Biocaml_std] | |
| Test [Biocaml_rSet] |
Debugging
|
| Tr [Biocaml_std.Tuple] | |
| Track [Biocaml] | |
| TrackLine [Biocaml_track] |
Track lines define display attributes.
|
| Tree [Biocaml_msg] |
Message tree for more complex messages.
|
| Tuple [Biocaml_std] | |
U | |
| Util [Biocaml] | |
W | |
| Wig [Biocaml] | |
| With_monad [Biocaml_std.Option] |