TUTORIAL.md

Bistro tutorial

Getting started with OCaml

Let's have a first taste of the library by writing some simple definitions in the OCaml interpreter (tip: use utop for a better experience):

First steps

#require "bistro.bioinfo";;

open Bistro.Std;;
open Bistro_bioinfo.Std;;

let sample = Sra.fetch_srr "SRR217304";;

After loading the library, we open two modules that provide convenient definitions. Then we define a value named sample by calling a function from the Sra module. The value sample has type sra workflow, meaning a workflow that produces files following the SRA format defined by NCBI.

Basic usage