Updated docs
diff --git a/docs/dyn/genomics_v1.referencesets.html b/docs/dyn/genomics_v1.referencesets.html
index 7bcbcc2..c418ddc 100644
--- a/docs/dyn/genomics_v1.referencesets.html
+++ b/docs/dyn/genomics_v1.referencesets.html
@@ -76,14 +76,14 @@
<h2>Instance Methods</h2>
<p class="toc_element">
<code><a href="#get">get(referenceSetId, x__xgafv=None)</a></code></p>
-<p class="firstline">Gets a reference set. Implements [GlobalAllianceApi.getReferenceSet](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L83).</p>
+<p class="firstline">Gets a reference set. For the definitions of references and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.getReferenceSet](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L83).</p>
<p class="toc_element">
<code><a href="#search">search(body, x__xgafv=None)</a></code></p>
-<p class="firstline">Searches for reference sets which match the given criteria. Implements [GlobalAllianceApi.searchReferenceSets](http://ga4gh.org/documentation/api/v0.5.1/ga4gh_api.html#/schema/org.ga4gh.searchReferenceSets).</p>
+<p class="firstline">Searches for reference sets which match the given criteria. For the definitions of references and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.searchReferenceSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L71)</p>
<h3>Method Details</h3>
<div class="method">
<code class="details" id="get">get(referenceSetId, x__xgafv=None)</code>
- <pre>Gets a reference set. Implements [GlobalAllianceApi.getReferenceSet](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L83).
+ <pre>Gets a reference set. For the definitions of references and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.getReferenceSet](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L83).
Args:
referenceSetId: string, The ID of the reference set. (required)
@@ -92,7 +92,7 @@
Returns:
An object of the form:
- { # A reference set is a set of references which typically comprise a reference assembly for a species, such as `GRCh38` which is representative of the human genome. A reference set defines a common coordinate space for comparing reference-aligned experimental data. A reference set contains 1 or more references.
+ { # A reference set is a set of references which typically comprise a reference assembly for a species, such as `GRCh38` which is representative of the human genome. A reference set defines a common coordinate space for comparing reference-aligned experimental data. A reference set contains 1 or more references. For more genomics resource definitions, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
"description": "A String", # Free text description of this reference set.
"sourceUri": "A String", # The URI from which the references were obtained.
"referenceIds": [ # The IDs of the reference objects that are part of this set. `Reference.md5checksum` must be unique within this set.
@@ -104,27 +104,27 @@
],
"md5checksum": "A String", # Order-independent MD5 checksum which identifies this reference set. The checksum is computed by sorting all lower case hexidecimal string `reference.md5checksum` (for all reference in this set) in ascending lexicographic order, concatenating, and taking the MD5 of that value. The resulting value is represented in lower case hexadecimal format.
"id": "A String", # The server-generated reference set ID, unique across all reference sets.
- "ncbiTaxonId": 42, # ID from http://www.ncbi.nlm.nih.gov/taxonomy (e.g. 9606->human) indicating the species which this assembly is intended to model. Note that contained references may specify a different `ncbiTaxonId`, as assemblies may contain reference sequences which do not belong to the modeled species, e.g. EBV in a human reference genome.
+ "ncbiTaxonId": 42, # ID from http://www.ncbi.nlm.nih.gov/taxonomy (for example, 9606 for human) indicating the species which this reference set is intended to model. Note that contained references may specify a different `ncbiTaxonId`, as assemblies may contain reference sequences which do not belong to the modeled species, for example EBV in a human reference genome.
}</pre>
</div>
<div class="method">
<code class="details" id="search">search(body, x__xgafv=None)</code>
- <pre>Searches for reference sets which match the given criteria. Implements [GlobalAllianceApi.searchReferenceSets](http://ga4gh.org/documentation/api/v0.5.1/ga4gh_api.html#/schema/org.ga4gh.searchReferenceSets).
+ <pre>Searches for reference sets which match the given criteria. For the definitions of references and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.searchReferenceSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L71)
Args:
body: object, The request body. (required)
The object takes the form of:
{
- "md5checksums": [ # If present, return references for which the `md5checksum` matches. See `ReferenceSet.md5checksum` for details.
+ "md5checksums": [ # If present, return reference sets for which the md5checksum matches exactly.
"A String",
],
"assemblyId": "A String", # If present, return reference sets for which a substring of their `assemblyId` matches this string (case insensitive).
- "accessions": [ # If present, return references for which the accession matches any of these strings. Best to give a version number, for example `GCF_000001405.26`. If only the main accession number is given then all records with that main accession will be returned, whichever version. Note that different versions will have different sequences.
+ "accessions": [ # If present, return reference sets for which a prefix of any of sourceAccessions match any of these strings. Accession numbers typically have a main number and a version, for example `NC_000001.11`.
"A String",
],
- "pageSize": 42, # Specifies the maximum number of results to return in a single page.
+ "pageSize": 42, # The maximum number of results to return in a single page. If unspecified, defaults to 1024. The maximum value is 4096.
"pageToken": "A String", # The continuation token, which is used to page through large result sets. To get the next page of results, set this parameter to the value of `nextPageToken` from the previous response.
}
@@ -136,7 +136,7 @@
{
"nextPageToken": "A String", # The continuation token, which is used to page through large result sets. Provide this value in a subsequent request to return the next page of results. This field will be empty if there aren't any additional results.
"referenceSets": [ # The matching references sets.
- { # A reference set is a set of references which typically comprise a reference assembly for a species, such as `GRCh38` which is representative of the human genome. A reference set defines a common coordinate space for comparing reference-aligned experimental data. A reference set contains 1 or more references.
+ { # A reference set is a set of references which typically comprise a reference assembly for a species, such as `GRCh38` which is representative of the human genome. A reference set defines a common coordinate space for comparing reference-aligned experimental data. A reference set contains 1 or more references. For more genomics resource definitions, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
"description": "A String", # Free text description of this reference set.
"sourceUri": "A String", # The URI from which the references were obtained.
"referenceIds": [ # The IDs of the reference objects that are part of this set. `Reference.md5checksum` must be unique within this set.
@@ -148,7 +148,7 @@
],
"md5checksum": "A String", # Order-independent MD5 checksum which identifies this reference set. The checksum is computed by sorting all lower case hexidecimal string `reference.md5checksum` (for all reference in this set) in ascending lexicographic order, concatenating, and taking the MD5 of that value. The resulting value is represented in lower case hexadecimal format.
"id": "A String", # The server-generated reference set ID, unique across all reference sets.
- "ncbiTaxonId": 42, # ID from http://www.ncbi.nlm.nih.gov/taxonomy (e.g. 9606->human) indicating the species which this assembly is intended to model. Note that contained references may specify a different `ncbiTaxonId`, as assemblies may contain reference sequences which do not belong to the modeled species, e.g. EBV in a human reference genome.
+ "ncbiTaxonId": 42, # ID from http://www.ncbi.nlm.nih.gov/taxonomy (for example, 9606 for human) indicating the species which this reference set is intended to model. Note that contained references may specify a different `ncbiTaxonId`, as assemblies may contain reference sequences which do not belong to the modeled species, for example EBV in a human reference genome.
},
],
}</pre>