biom-package |
This is an R package for interfacing with the biom format. |
biom |
Build and return an instance of the biom-class. |
biom-class |
The biom format data class. |
biom-method |
Build and return an instance of the biom-class. |
biom_data |
Access main data observation matrix data from 'biom-class'. |
biom_data-method |
Access main data observation matrix data from 'biom-class'. |
biom_shape |
The matrix dimensions of a 'biom-class' object. |
biom_shape-method |
The matrix dimensions of a 'biom-class' object. |
colnames |
Method extensions to 'colnames' for 'biom-class' objects. |
colnames-method |
Method extensions to 'colnames' for 'biom-class' objects. |
header |
Extract the header from a 'biom-class' object as a list. |
header-method |
Extract the header from a 'biom-class' object as a list. |
matrix_element_type |
Access class of data in the matrix elements of a 'biom-class' object |
matrix_element_type-method |
Access class of data in the matrix elements of a 'biom-class' object |
ncol |
Method extensions to 'ncol' for 'biom-class' objects. |
ncol-method |
Method extensions to 'ncol' for 'biom-class' objects. |
nrow |
Method extensions to 'nrow' for 'biom-class' objects. |
nrow-method |
Method extensions to 'nrow' for 'biom-class' objects. |
observation_metadata |
Access observation (row) meta data from 'biom-class'. |
observation_metadata-method |
Access observation (row) meta data from 'biom-class'. |
read_biom |
Read a biom-format file, returning a 'biom-class'. |
rownames |
Method extensions to 'rownames' for 'biom-class' objects. |
rownames-method |
Method extensions to 'rownames' for 'biom-class' objects. |
sample_metadata |
Access meta data from 'biom-class'. |
sample_metadata-method |
Access meta data from 'biom-class'. |
show |
Method extensions to show for biom objects. |
show-method |
Method extensions to show for biom objects. |
write_biom |
Write a biom-format file, returning a 'biom-class'. |