No promises. I have done a lot of reverse engineering in C/C++. So where is the extant C/C++ source??
On Mon, Feb 1, 2016 at 5:21 PM, Olaf Klinke <o...@aatal-apotheke.de> wrote: > Yes, there is a TODO: Get rid of the "cheap watches" spam sent to this list. > In fact the signal/noise ratio makes we want to unsubscribe. > > Other than that, I'd like to see someone reverse-engineer one of the major > sequence index formats and provide a Haskell interface, so that we can design > our own functional alignment algorithms instead of building shell scripts > around bowtie or bwa. > By reverse-engineer I mean look at the source code. It's all there, but > poorly documented. I understand too little C/C++ to make sense of how > precisely these index structures are stored. But if one could write a > Data.Binary instance, that'd be awesome. > Meanwhile I implemented a Lempel-Ziv together with full-text search on the > compressed data (not my idea). This is possible if one uses one trie for the > entire text. However, full-text search only succeeds if the match overlaps a > block boundary. That should be fine for sufficiently long queries. > > --Olaf
