# How-to guides

Task-oriented recipes. Each page solves one concrete problem and is self-contained.

## I/O

```{toctree}
:maxdepth: 1

read-a-structure
write-a-structure
read-a-trajectory
```

## Selection and manipulation

```{toctree}
:maxdepth: 1

select-atoms
filter-and-remove
append-and-merge-molecules
set-and-get-properties
```

## Bonds, segments, topology

```{toctree}
:maxdepth: 1

guess-bonds
assign-segments-and-chains
wrap-trajectories
```

## Geometry and analysis

```{toctree}
:maxdepth: 1

align-structures
compute-distances-and-contacts
compute-dihedrals
compute-rmsd-rmsf
```

## Projections and interactions

```{toctree}
:maxdepth: 1

compute-projections
compute-protein-ligand-interactions
```

## Conversion to other toolkits

```{toctree}
:maxdepth: 1

convert-to-rdkit-and-openff
```

## Visualization

```{toctree}
:maxdepth: 1

view-a-molecule
```

## External resources

```{toctree}
:maxdepth: 1

fetch-from-rcsb-and-opm
```