Travers

Feature request: option for no gap penalty in target start and end of both target/query

15

Here's a quick example of what I think would be useful: ``` #include #include "parasail.h" using namespace Rcpp; // [[Rcpp::export]] void example_test() { const parasail_matrix_t *smat = parasail_matrix_lookup("nuc44"); std::string seqA...

Feature requests: R bindings and early stopping

1

Nice work! Would it be possible to get R bindings for this? I put together a minimal example here: https://github.com/traversc/WavefrontAlignR (feel free to do whatever with it) I'd also like...

multiple grids

12

I modified the code to allow for multiple grids - important when trying to cover along a diagonal coast for example. You can see an example here: http://imgur.com/a/fxI4f. Should still...

Revise Z85 base encoding spec to handle non-multiples of 4 bytes

2

The spec doesn't allow for arbitrary number of bytes, but it could be easily modified to handle it. In fact, there is enough information in just the `size` parameter to...

The future of qs

10

I plan to deprecate the `qs` package in the future. There is a replacement available, `qs2`, on CRAN and GitHub ([1](https://github.com/qsbase/qs2)). There are two reasons: - New CRAN enforcement regarding...

When performing subscript assignment of a `std::string` to `writable::strings` there's first a conversion to the `r_string` class which includes a protection. However, that protection shouldn't be necessary if the result...

fraq

4

Update the following URL to point to the GitHub repository of the package you wish to submit to _Bioconductor_ - Repository: https://github.com/traversc/fraq Confirm the following by editing each check box...