update docs

README.md

@@ -28,6 +28,7 @@ To install this package: `] add https://github.com/stelmo/eQuilibrator.jl`. See
 using eQuilibrator
 
 system = eQuilibrator.System(ionic_strength=150.0u"mM")
+
 rxn_string = "bigg.metabolite:atp + bigg.metabolite:h2o = bigg.metabolite:adp + bigg.metabolite:pi"
 
 dg_prime(system, rxn_string) # -26.88 ± 0.3 kJ mol^-1

docs/src/examples.md

@@ -3,7 +3,7 @@
 The following examples follow closely the [example usage](https://equilibrator.readthedocs.io/en/latest/equilibrator_examples.html#Code-examples) 
 documented in `equilibrator_api`. Try running these examples!
 
-# Basic ΔG' calculations
+## Basic ΔG' calculations
 Load `eQuilibrator.jl` and `Unitful`. Then initialize the thermodynamic `system` as shown below.
 ```
 using eQuilibrator
@@ -57,3 +57,13 @@ ln_reversibility_index(system, rxn_string)
     [eQuilibrator](https://equilibrator.weizmann.ac.il/static/classic_rxns/faq.html#how-do-you-calculate-the-uncertainty-for-each-estimation) 
     supplies estimates with uncertainties, these are reflected by the use of `a ± b` with `b` being the uncertainty, assumed to be
     one standard deviation here.
+
+## Reaction parsing
+It is possible to mix and match metabolite identifiers, exactly like in
+`equilibrator_api`, with the associated warnings. In short, the reaction string
+is directly passed to `equilibrator_api`, so whatever strings works for it, will
+also work here.
+```
+atpase_rxn_string_2 = "kegg:C00002 + CHEBI:15377 = metanetx.chemical:MNXM7 + bigg.metabolite:pi"
+dg_prime(system, atpase_rxn_string_2)
+```

docs/src/functions.md

@@ -1,4 +1,4 @@
-## Function reference
+# Function reference
 
 ```@autodocs
 Modules=[eQuilibrator]

docs/src/index.md

@@ -6,3 +6,9 @@ provides a programmatic way to make use of the functionality of
 [eQuilibrator](https://equilibrator.weizmann.ac.il/). This is particularly
 useful when one needs access to thermodynamic information about reactions or
 compounds. 
+
+## Index
+```@contents
+Pages = ["installation.md", "examples.md", "functions.md"]
+Depth = 1
+```