Eric T. Dawson
Eric T. Dawson
I'm merging calls from three callers (delly, wham, dRanger), but I don't get what I would expect in the TAGS/UTAGS fields of my vcf. Some tags say "DELLY", which seems...
The `gfak diff` command is currently a very (*very*) dumb comparison tool. I've finally got around to drawing up a useful way to compare two graphs, which may or may...
@sjackman wants a tool to remove segments with length below a threshold. This should be pretty easy to implement. The right way would be to allow filtering on graph ingestion...
String output currently builds a stringstream, which is fine for small graphs but pretty ugly for huge ones. We should refactor this. One suggestion: Have a helper function that takes...
This is now required in GFA2, but currently is not implemented. We can simply bump the edge IDs by max(seg_ids).
We don't currently check any of the input / output against GFA spec. It would be nice to, and in theory it wouldn't add too much overhead. An intelligent way...
Right now, we only pass reads through filter if they match any of the reference genomes provided above a certain threshold. However, the inverse filter (where reads that match the...
As written above, I'd like to implement an option to require that all kmers in each reference sketch be unique.