module Biocaml_entrez:sig
..end
This modules provides a partial access to Entrez databases such as Pubmed, Gene or Protein. The API proposed by the NCBI is based on HTTP requests, and this modules contains a couple of functions to ease the construction of appropriate URLs. This module also offers a more high-level access, with parsers for the answers from Entrez.
Databases in Entrez can be seen as collections of records, each
record representing an object of the database. The basic usage of
the low-level API is first to search a database with the esearch
utility. Given a query string, esearch will return a collection
of identifiers. These identifiers are then used to fetch the
actual records with the efetch utility. These two operations are
done in one call with the high-level API.
typedatabase =
[ `gene
| `genome
| `geodatasets
| `geoprofiles
| `protein
| `pubmed
| `pubmedcentral
| `sra
| `taxonomy
| `unigene ]
val esearch_url : ?retstart:int ->
?retmax:int ->
?rettype:[ `count | `uilist ] ->
?field:string ->
?datetype:[ `edat | `mdat | `pdat ] ->
?reldate:int ->
?mindate:string ->
?maxdate:string -> database -> string -> string
type
esearch_answer = {
|
count : |
|
retmax : |
|
retstart : |
|
ids : |
val esearch_answer_of_string : string -> esearch_answer
val esummary_url : ?retstart:int ->
?retmax:int -> database -> string list -> string
val efetch_url : ?rettype:string ->
?retmode:[ `asn_1 | `text | `xml ] ->
?retstart:int ->
?retmax:int ->
?strand:[ `minus | `plus ] ->
?seq_start:int ->
?seq_stop:int -> database -> string list -> string
rettype
and
retmode
please consult
the
official specification.module type Fetch =sig
..end
module Make: