Daniel Standage
Daniel Standage
I'm just exploring the extent to which I can de-clutter the build configuration.
Some small additions to the dev docs for new contributors. Closes #464. Ready for review! Although our docs build seems to be choking on a sphinx dependency... - [x] Was...
Until recently, the `setup.py` file was intended to dynamically detect whether Cython was installed. If it was, extensions would be built directly from the Cython files. If not, it would...
The khmer and kevlar docs are both failing to build due to an import error that only appears when khmer is `make install`'d. The following error was nabbed from ReadTheDocs....
Scenario: I want to query some big ol' counttables, and my k-mers of interest are those that are abundance
I am considering integrating the `broken_paired_reader` into kevlar (see https://github.com/dib-lab/kevlar/issues/207). I understand at a high level what it's *intended* to do, but I don't understand the specifics of how it...
My colleague @Parsoa has been using khmer to implement some genotyping software, and he has run into a snag. The issue can be isolated with the following minimal example. ```python...
There are a couple of issues with the current Docker build config. - The `Dockerfile` assumes that each commit being tested is originating from `dib-lab/khmer`. This is true of most...
This PR is a Python prototype of the idea described in #1800. In brief, the idea is to count k-mers in the input reads and populate N counttables (each with...
Banding stuff has been pretty well battle tested in kevlar, but hasn't made it to the khmer CLI yet. This requires not only adding arguments to support banding, but integrating...