A compressed list of atomic vectors of the same type. The concatenation of all vectors is stored in the resource referenced by the concatenated property.
Derived from compressed_list/v1.json: a virtual compressed list where all elements are vector-like objects of the same type, corresponding to the CompressedList class from the IRanges Bioconductor package. Each list element contains a vector-like object with a variable number of subelements, which can be concatenated into a single vector-like object of the same type with length equal to the sum of the individual element lengths. The use of a concatenated object improves storage efficiency as list elements can be compressed into a single file.
The partitioning of the concatenated object into individual list elements is described in a data frame, saved to path as a CSV file using the comservatory specification. This data frame contains one row per list element, along with a number column that specifies the size of each vector-like object. Subelements are partitioned by assigning the specified number of consecutive subelements into a contiguous series of vector-like objects, each of which correspond to successive list elements. If the names property is true, the first column of the data frame contains the names of the list elements.
Concrete subclasses are expected to provide a concatenated property that points to the concatenated object.
The schema to use.
Pointer to the concatenated contents of all the atomic vectors. This is stored as a 1-column data frame. If the data frame has row names, these are used as the names of the elements of the concatenated vector.
Relative path of the resource from the root of the project directory.
Type of file. Local files should be present in the same project directory.
Type of compression applied to the file.
Pointer to a data frame containing additional annotations for each element in the list. If omitted, no additional annotations are present.
Relative path of the resource from the root of the project directory.
Type of file. Local files should be present in the same project directory.
Number of entries, specifically the number of groups.
Whether the list is named. If true, the first column of CSV contains the names of the list elements.
Pointer to a list containing additional metadata for this object. Omitted if no additional metadata is available.
Relative path of the resource from the root of the project directory.
Type of file. Local files should be present in the same project directory.
Description of the resource.
UCSC, Ensembl or other genome builds involved in generating this resource.
Identifier for this genome build.
"mm10"
"NCBIm37"
Source of the genome build identifier.
Is this a child document, only to be interpreted in the context of the parent document from which it is linked? This may have implications for search and metadata requirements.
MD5 checksum for the file.
Origins of this resource.
If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.
"PubMed" ^[0-9]+$ If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.
"GEO" ^GSE[0-9]+$ If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.
"ArrayExpress" ^E-MTAB-[0-9]+$ If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.
"DOI" ^[0-9a-zA-Z\._-]+/[0-9a-zA-Z\._-]+$ If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.
"URI" ^(http|ftp|https|s3|sftp):// Identifier for the resource in the specified type.
Source database or repository.
Path to the file in the project directory.
NCBI taxonomy IDs of the species involved in this resource.
Terms from a controlled vocabulary, used to annotate this resource in a machine-readable manner.
If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.
"Experimental Factor Ontology" ^EFO:[0-9]{7}$ If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.
"Human Disease Ontology" ^DOID:[0-9]+$ If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.
"Cell Ontology" ^CL:[0-9]{7}$ If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.
"UBERON" "^UBERON:[0-9]{7}$" Identifier for the term.
"EFO:0008913"
"DOID:13250"
"CL:0000097"
"UBERON:0005870"
Name of the vocabulary or ontology that is the source for this term.
Version of the vocabulary.
Title of the resource.
If the conditions in the "If" tab are respected, then the conditions in the "Then" tab should be respected. Otherwise, the conditions in the "Else" tab should be respected.
true