Jerome Kelleher
Jerome Kelleher
We currently have no HTML representation of a TableCollection, although ``__str__`` is defined. Showing the same data as ``__str__`` seems like a good approach.
Assuming that we agree on filtering candidate segments based on the ``among`` and ``between`` segments within the IBD finding algorithm as proposed in #1662, the interface between the IBD finding...
Currently, if you want to query whether a schema is set you need to write: ```python if table.metadata_schema == tskit.MetadataSchema(schema=None): # do something ``` and to set to a null...
Following up on #1596, we'd like to build out some basic functionality to help us work with cross coalescence statistics. The simplest thing we can do to start with (as...
As shown in https://github.com/tskit-dev/msprime/discussions/1901 metadata validation is proving to be quite expensive for msprime simulations. One option would be to change our code to use https://github.com/horejsek/python-fastjsonschema It has [conda-forge](https://anaconda.org/conda-forge/python-fastjsonschema) and...
It would be good to add an example of using at least some of the statistics on the Statistics page. It's a bit of a wall of text at the...
Following up on #1937, it would be generally useful to make the node based caching in the general stat framework optional in the C code. Then propagate the option back...
The current definitions of SearchReadGroupSetsRequest has the following: ``` javascript // Specifying the id of a BioSample record will return only readgroups // with the given bioSampleId. string bio_sample_id =...
This is an initial proposal for adding block size bounds to htsget. The idea here is for the client to suggest an upper bound on the size of the blocks...
We should log when significant events happen in the FileHandleCache, as this will be an important debugging tool.